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content.","body":{"type":"root","children":[{"type":"element","tag":"h1","props":{"id":"hello-world"},"children":[{"type":"text","value":"Hello world"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Here is some markdown content."}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"/lessons/demo"},"children":[{"type":"text","value":"Demo lesson link"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:index.md","_source":"local_fs","_file":"index.md","_extension":"md","plainText":"# Hello world\n\nHere is some markdown content.\n\n[Demo lesson link](/lessons/demo)\n"},{"_path":"/license","_dir":"","_draft":false,"_partial":false,"_locale":"","title":"LICENSE","description":"The content of the modules/ folder of this project is licensed under a Creative Commons Attribution 4.0 International 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apply to any image files in the "},{"type":"element","tag":"code","props":{"className":[]},"children":[{"type":"text","value":"modules"}]},{"type":"text","value":" folder or its subfolders.\nImage files are files with "},{"type":"element","tag":"code","props":{"className":[]},"children":[{"type":"text","value":".png"}]},{"type":"text","value":", "},{"type":"element","tag":"code","props":{"className":[]},"children":[{"type":"text","value":".jpg"}]},{"type":"text","value":", "},{"type":"element","tag":"code","props":{"className":[]},"children":[{"type":"text","value":".svg"}]},{"type":"text","value":", or "},{"type":"element","tag":"code","props":{"className":[]},"children":[{"type":"text","value":".gif"}]},{"type":"text","value":" extensions."}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:LICENSE.md","_source":"local_fs","_file":"LICENSE.md","_extension":"md","plainText":"\"Creative
The content of the `modules/` folder of this project is licensed under a Creative Commons Attribution 4.0 International License.\n\nThis license does not apply to any image files in the `modules` folder or its subfolders.\nImage files are files with `.png`, `.jpg`, `.svg`, or `.gif` extensions.\n"},{"_path":"/main/about","_dir":"main","_draft":false,"_partial":false,"_locale":"","title":"About","description":"","body":{"type":"root","children":[{"type":"element","tag":"h2","props":{"id":"about-this-lessonproject"},"children":[{"type":"text","value":"About this lesson/project"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Provide details about the project and lesson."}]},{"type":"element","tag":"h2","props":{"id":"target-audience"},"children":[{"type":"text","value":"Target audience"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Define target audience for this material."}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"about-this-lessonproject","depth":2,"text":"About this lesson/project"},{"id":"target-audience","depth":2,"text":"Target audience"}]}},"_type":"markdown","_id":"local_fs:main:about.md","_source":"local_fs","_file":"main/about.md","_extension":"md","plainText":"---\ntitle: About\n---\n\n## About this lesson/project\n\nProvide details about the project and lesson.\n\n## Target audience\n\nDefine target audience for this material."},{"_path":"/main/contribute","_dir":"main","_draft":false,"_partial":false,"_locale":"","title":"Contribute","description":"","body":{"type":"root","children":[{"type":"element","tag":"h2","props":{"id":"contributing-to-this-lesson"},"children":[{"type":"text","value":"Contributing to this lesson"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Add contributing guidelines for you project."}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"contributing-to-this-lesson","depth":2,"text":"Contributing to this lesson"}]}},"_type":"markdown","_id":"local_fs:main:contribute.md","_source":"local_fs","_file":"main/contribute.md","_extension":"md","plainText":"---\ntitle: Contribute\n---\n\n## Contributing to this lesson\n\nAdd contributing guidelines for you project."},{"_path":"/modules/api-design/context","_dir":"api-design","_draft":false,"_partial":false,"_locale":"","title":"Background unit 6","description":"","type":"reading","order":1,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"background"},"children":[{"type":"text","value":"Background"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"API design refers to the process of developing application programming interfaces (APIs) that expose data and application functionality for use by developers and users. APIs are important to modern organizations, adding new capabilities to everything from their operations/products to their partnership strategies. It is no longer a stretch to say that most organizations do not ask whether to engage in API programs, but how to do so” "},{"type":"element","tag":"a","props":{"href":""},"children":[{"type":"text","value":"3"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"background","depth":3,"text":"Background"}]}},"_type":"markdown","_id":"local_fs:modules:API-design:context.md","_source":"local_fs","_file":"modules/API-design/context.md","_extension":"md","plainText":"---\ntitle: Background unit 6 \ntype: reading\norder: 1 \n---\n\n### Background \nAPI design refers to the process of developing application programming interfaces (APIs) that expose data and application functionality for use by developers and users. APIs are important to modern organizations, adding new capabilities to everything from their operations/products to their partnership strategies. It is no longer a stretch to say that most organizations do not ask whether to engage in API programs, but how to do so” [3]()\n"},{"_path":"/modules/api-design/further_reading","_dir":"api-design","_draft":false,"_partial":false,"_locale":"","title":"Further Reading","description":"","type":"reading","order":6,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"further-reading"},"children":[{"type":"text","value":"Further Reading"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Extra material"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Data- Manipulating Strings, by Daniel Shiffman, processing.org "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"Tutorial"}]},{"type":"text","value":"."}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Processing-in-Memory Course: How to Evaluate Data Movement Bottlenecks "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"talk, 1 hours"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Time Series Forecasting Theory, by [time series, 54mn]"},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"time series, 54mn"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Data Processing in Python with Pandas, by Daniel Chen "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"SciPy 2019 Tutorial, 3hours"}]},{"type":"text","value":"."}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Data Analysis with Python - Full Course for Beginners "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"Online course, 4hours"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"further-reading","depth":3,"text":"Further Reading"}]}},"_type":"markdown","_id":"local_fs:modules:API-design:further_reading.md","_source":"local_fs","_file":"modules/API-design/further_reading.md","_extension":"md","plainText":"---\ntitle: Further Reading \ntype: reading\norder: 6\n---\n\n### Further Reading\nExtra material \n\nData- Manipulating Strings, by Daniel Shiffman, processing.org [Tutorial]. \n\nProcessing-in-Memory Course: How to Evaluate Data Movement Bottlenecks [talk, 1 hours] \n\nTime Series Forecasting Theory, by [time series, 54mn][time series, 54mn] \n\nData Processing in Python with Pandas, by Daniel Chen [SciPy 2019 Tutorial, 3hours]. \n\nData Analysis with Python - Full Course for Beginners [Online course, 4hours] \n"},{"_path":"/modules/api-design","_dir":"modules","_draft":false,"_partial":false,"_locale":"","title":"API design","description":"Photo by TODO on Unsplash","category":"Module1","order":6,"author":"eScience Center","abstract":null,"thumbnail":"api-design_v2.png","visibility":"visible","body":{"type":"root","children":[{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Photo by "},{"type":"element","tag":"a","props":{"href":""},"children":[{"type":"text","value":"TODO"}]},{"type":"text","value":" on "},{"type":"element","tag":"a","props":{"href":"https://csharp-station.com/Tutorial/CSharp/Lesson19"},"children":[{"type":"text","value":"Unsplash"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:API-design:index.md","_source":"local_fs","_file":"modules/API-design/index.md","_extension":"md","plainText":"---\ntitle: API design \ncategory: Module1\norder: 6 \nauthor: eScience Center\nabstract: \nthumbnail: \"api-design_v2.png\"\nvisibility: visible\n---\n\n\nPhoto by TODO on Unsplash\n \n \n"},{"_path":"/modules/api-design/info","_dir":"api-design","_draft":false,"_partial":false,"_locale":"","title":"Learning objectives","description":"After completing unit 6 you will have acquired a basic concept of API design what is an API, exploring APIs, and using APIs.","type":"info","order":0,"body":{"type":"root","children":[{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"After completing unit 6 you will have acquired a basic concept of API design what is an API, exploring APIs, and using APIs."}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Understand the Role of APIs in Modern design: Learners will be able to explain the significance of APIs in enhancing organizational operations, products, and partnerships, and why API programs are essential in today's technological landscape."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Grasp Fundamental Concepts of API Design: Learners will be able to identify key principles of API design, including exposing data and functionality effectively for developer and user interaction."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Apply Basic API Usage Skills"},{"type":"element","tag":"div","props":{},"children":[]},{"type":"text","value":" will be able to utilize APIs by following the \"APIs for Beginners\" tutorial, demonstrating the ability to interact with APIs, retrieve data, and integrate API functionality into applications."},{"type":"element","tag":"br","props":{},"children":[]}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:API-design:info.md","_source":"local_fs","_file":"modules/API-design/info.md","_extension":"md","plainText":"---\ntitle: Learning objectives\ntype: info\norder: 0\n---\n\nAfter completing unit 6 you will have acquired a basic concept of API design what is an API, exploring APIs, and using APIs. \n\n- Understand the Role of APIs in Modern design: Learners will be able to explain the significance of APIs in enhancing organizational operations, products, and partnerships, and why API programs are essential in today's technological landscape.\n\n- Grasp Fundamental Concepts of API Design: Learners will be able to identify key principles of API design, including exposing data and functionality effectively for developer and user interaction.\n\n- Apply Basic API Usage Skills:Learners will be able to utilize APIs by following the \"APIs for Beginners\" tutorial, demonstrating the ability to interact with APIs, retrieve data, and integrate API functionality into applications.\n"},{"_path":"/modules/api-design/instructions","_dir":"api-design","_draft":false,"_partial":false,"_locale":"","title":"Unit 6 Instructions","description":"","type":"reading","order":2,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"instructions"},"children":[{"type":"text","value":"Instructions"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"For Unit 6, we selected a couple of references which will help you to acquire the necessary knowledge on API-design. As main material for Unit 6, we suggest following the 2-hour Tutorial APIs for Beginners - How to use an API, by freeCodeCamp.org "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"1"}]},{"type":"text","value":"."}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"As usual for those who prefer reading material, we suggest reading the book chapter General introduction and Design API patterns "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"2"}]},{"type":"text","value":". Finally, for a quick introduction to understanding APIs, we suggest reading the Red Hat® Shares newsletter, Understanding APIs "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"3"}]},{"type":"text","value":"."}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"To complete Unit 6, you are expected to:"}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Read/watch the suggested teaching material."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Please send the list of questions to your coach one day before."}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Important: the proposed material includes hands-on assignments. Do try them and if you encounter issues you cannot solve, do share them with your coach."}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Time expected to complete this unit: "},{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"4 hours"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"instructions","depth":3,"text":"Instructions"}]}},"_type":"markdown","_id":"local_fs:modules:API-design:instructions.md","_source":"local_fs","_file":"modules/API-design/instructions.md","_extension":"md","plainText":"---\ntitle: Unit 6 Instructions \ntype: reading\norder: 2\n---\n\n### Instructions \n\nFor Unit 6, we selected a couple of references which will help you to acquire the necessary knowledge on API-design. As main material for Unit 6, we suggest following the 2-hour Tutorial APIs for Beginners - How to use an API, by freeCodeCamp.org [1]. \n\n \n\nAs usual for those who prefer reading material, we suggest reading the book chapter General introduction and Design API patterns [2]. Finally, for a quick introduction to understanding APIs, we suggest reading the Red Hat® Shares newsletter, Understanding APIs [3]. \n\nTo complete Unit 6, you are expected to: \n\n - Read/watch the suggested teaching material. \n\n - Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach. \n\n - Please send the list of questions to your coach one day before. \n\nImportant: the proposed material includes hands-on assignments. Do try them and if you encounter issues you cannot solve, do share them with your coach. \n\nTime expected to complete this unit: **4 hours**\n"},{"_path":"/modules/api-design/slides-api-design","_dir":"api-design","_draft":false,"_partial":false,"_locale":"","title":"API design","description":"===","type":"slides","order":3,"body":{"type":"root","children":[{"type":"element","tag":"h1","props":{"id":"api-design"},"children":[{"type":"text","value":"API Design"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"h2","props":{"id":"api-design"},"children":[{"type":"text","value":"API Design "},{"type":"element","tag":"todo","props":{},"children":[]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"http://www.esciencecenter.nl","rel":["nofollow"]},"children":[{"type":"text","value":"www.esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"mailto:info@esciencecenter.nl"},"children":[{"type":"text","value":"info@esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"020 - 460 47 70"}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"api-design","depth":2,"text":"API Design "}]}},"_type":"markdown","_id":"local_fs:modules:API-design:slides-API-design.md","_source":"local_fs","_file":"modules/API-design/slides-API-design.md","_extension":"md","plainText":"---\ntitle: API design \ntype: slides\norder: 3\n---\n\n\n\n# API Design\n\n===\n\n\n\n## API Design \n \n\n===\n\n\n\nwww.esciencecenter.nl\n\ninfo@esciencecenter.nl\n \n020 - 460 47 70 \n"},{"_path":"/modules/api-design/teaching_material","_dir":"api-design","_draft":false,"_partial":false,"_locale":"","title":"Teaching Material","description":"","type":"exercise","order":5,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"teaching-material"},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Teaching Material"}]}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"APIs for Beginners - How to use an API,"},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=GZvSYJDk-us","rel":["nofollow"]},"children":[{"type":"text","value":"freeCodeCamp.org"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"General introduction and Design API patterns "},{"type":"element","tag":"a","props":{"href":"https://livebook.manning.com/book/api-design-patterns/chapter-1/","rel":["nofollow"]},"children":[{"type":"text","value":"Book chapter"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"What is API design? Red Hat® Shares "},{"type":"element","tag":"a","props":{"href":"https://www.redhat.com/en/topics/api","rel":["nofollow"]},"children":[{"type":"text","value":"NewLetters"}]}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"teaching-material","depth":3,"text":"Teaching Material"}]}},"_type":"markdown","_id":"local_fs:modules:API-design:teaching_material.md","_source":"local_fs","_file":"modules/API-design/teaching_material.md","_extension":"md","plainText":"---\ntitle: Teaching Material \ntype: exercise\norder: 5\n---\n\n### **Teaching Material**\n\n- APIs for Beginners - How to use an API,[freeCodeCamp.org](https://www.youtube.com/watch?v=GZvSYJDk-us)\n\n- General introduction and Design API patterns [Book chapter](https://livebook.manning.com/book/api-design-patterns/chapter-1/)\n\n- What is API design? Red Hat® Shares [NewLetters](https://www.redhat.com/en/topics/api)\n\n"},{"_path":"/modules/code-review/context","_dir":"code-review","_draft":false,"_partial":false,"_locale":"","title":"Background unit 3","description":"","type":"reading","order":3,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"background"},"children":[{"type":"text","value":"Background"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Code reviews has helps to improve code quality by detecting issues before they snowball out of control and ensuring consistent standards. This leads to robust software that is built from components for seamless integration and functionality. Code reviews also help the knowledge transfer among the software development team a source code that is constantly under review allows developers to learn more reliable techniques and best practices."}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"background","depth":3,"text":"Background"}]}},"_type":"markdown","_id":"local_fs:modules:Code-review:context.md","_source":"local_fs","_file":"modules/Code-review/context.md","_extension":"md","plainText":"---\ntitle: Background unit 3 \ntype: reading\norder: 3\n---\n\n### Background \n\nCode reviews has helps to improve code quality by detecting issues before they snowball out of control and ensuring consistent standards. This leads to robust software that is built from components for seamless integration and functionality. 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[1] a talk given at PyGotham 2018 conference, you will learn practical techniques to improve communication and minimize conflict during code reviews: Reducing human effort of reviews through automation, increase review velocity, give sincere praise, Framing discussions for constructive debate, and Mitigating stalemates. [2] is also a talk given at Goto Conference 2019 the talk. It gives some hints to avoid reviews that barely scratch the surface of the work being put forth, or reviews that offer feedback that is unclear or hard to act upon. \n\n**To complete Unit 3, you are expected to:** \n\n - Read/watch the suggested [teaching material](http://localhost:3000/internal-training/modules/Software-testing/teaching_material) \n - Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach. \n - Please send the list of questions to your coach one day before the weekly meetings.. \n\nTime expected to complete this unit: **4 hours**\n"},{"_path":"/modules/code-review/slides-code-review","_dir":"code-review","_draft":false,"_partial":false,"_locale":"","title":"Code Review","description":"===","type":"slides","order":3,"body":{"type":"root","children":[{"type":"element","tag":"h1","props":{"id":"code-review"},"children":[{"type":"text","value":"Code Review"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"h2","props":{"id":"code-review"},"children":[{"type":"text","value":"Code Review 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Code Review\n\n===\n\n\n\n## Code Review \n \n\n===\n\n\n\nwww.esciencecenter.nl\n\ninfo@esciencecenter.nl\n \n020 - 460 47 70 \n"},{"_path":"/modules/code-review/slides-reasearch-software","_dir":"code-review","_draft":false,"_partial":false,"_locale":"","title":"Research Software","description":"===","type":"slides","order":3,"body":{"type":"root","children":[{"type":"element","tag":"h1","props":{"id":"research-software"},"children":[{"type":"text","value":"Research Software"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"h2","props":{"id":"what-is-research-software"},"children":[{"type":"text","value":"What is research software?"}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Writing research software involves a unique set of challenges and 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software?"},{"id":"research-software-lifecycle","depth":2,"text":"Research Software lifecycle"},{"id":"research-software-lifecycle-1","depth":2,"text":"Research Software lifecycle"},{"id":"research-software-in-all-scientific-disciplines","depth":2,"text":"Research software in all scientific disciplines"},{"id":"research-software-requirements","depth":2,"text":"Research software requirements"},{"id":"re-use-existing-open-source-software","depth":2,"text":"Re-use existing open-Source software"},{"id":"programming","depth":2,"text":"Programming"},{"id":"programming-languages","depth":2,"text":"Programming Languages"},{"id":"software-architecture","depth":2,"text":"Software Architecture"},{"id":"devopsteam-development","depth":2,"text":"DevOpsTeam development"},{"id":"reusability-of-research-software","depth":2,"text":"Reusability of Research software"},{"id":"takeaway","depth":2,"text":"Takeaway"}]}},"_type":"markdown","_id":"local_fs:modules:Code-review:slides-reasearch-software.md","_source":"local_fs","_file":"modules/Code-review/slides-reasearch-software.md","_extension":"md","plainText":"---\ntitle: Research Software \ntype: slides\norder: 3\n---\n\n\n\n# Research Software \n\n===\n\n\n\n## What is research software?\n \n- Writing research software involves a unique set of challenges and considerations. \n- Research software development is an iterative process, and adapting to emerging best practices and community standards is crucial for success. \n- Collaboration and open communication with colleagues and the research community are key to producing high-quality research software.\n\nNote: \n\nHere are some best practices to keep in mind when developing research software:\n1. **Plan and Design Carefully:**\n - Start with a clear project plan and research goals.\n - Design your software architecture thoughtfully, with modularity and scalability in mind.\n - Document your software design, including data structures, algorithms, and dependencies.\n\n2. **Version Control:**\n - Use a version control system (e.g., Git) to track changes and collaborate with others.\n - Host your code on platforms like GitHub for easy collaboration and sharing.\n\n3. **Reproducibility:**\n - Make your code and research environment as reproducible as possible.\n - Document dependencies and provide setup instructions.\n - Consider containerization with tools like Docker to encapsulate the environment.\n\n4. **Documentation:**\n - Write clear and comprehensive documentation for your code.\n - Include comments in the code to explain complex logic or algorithms.\n - Use tools like Jupyter Notebooks for interactive documentation.\n\n5. **Testing:**\n - Implement unit tests, integration tests, and validation tests to ensure your software works correctly.\n - Use continuous integration (CI) to automate testing and catch errors early.\n\n6. **Performance Optimization:**\n - Optimize critical parts of your code for efficiency.\n - Use profiling tools to identify bottlenecks.\n - Consider parallelization or GPU acceleration for computationally intensive tasks.\n\n7. **Data Management:**\n - Implement data handling and storage best practices, including data cleaning and validation.\n - Use appropriate data structures and databases for efficient data management.\n\n8. **Licensing:**\n - Choose an open-source license that aligns with your project's goals (e.g., MIT, Apache, or GPL).\n - Clearly specify the license in your project repository.\n\n9. **Collaboration:**\n - Foster a collaborative environment by welcoming contributions from others.\n - Use platforms like GitHub for issue tracking and pull requests.\n\n10. **Security:**\n - Protect sensitive data and prevent security vulnerabilities.\n - Keep libraries and dependencies up to date to address security issues.\n\n11. **User-Friendly Interfaces:**\n - Develop user-friendly interfaces and command-line options.\n - Consider creating graphical user interfaces (GUIs) for non-technical users.\n\n12. **Community Building:**\n - Engage with the research community, present your work, and seek feedback.\n - Consider publishing your code and datasets in repositories like Zenodo or Figshare.\n\n13. **Citation and DOI:**\n - Assign a DOI to your software, making it citable in research publications.\n - Encourage others to cite your work when they use your software.\n\n14. **Maintenance and Sustainability:**\n - Plan for long-term maintenance and updates.\n - Seek funding or support to ensure the sustainability of your research software.\n\n15. **Ethics and Compliance:**\n - Ensure your software complies with ethical guidelines and legal regulations, especially when dealing with sensitive data.\n\n16. **Peer Review:**\n - Consider submitting your software for peer review through platforms like the Journal of Open Source Software (JOSS).\n\n===\n\n\n\n## Research Software lifecycle \n\n| steps | Authors |\n| :-- | :-- |\n| 1. Conducting Research | Individual / team |\n| **Design phase:** **(2)** Software architecture **(3)** Check open source | Individual / team |\n| **Coding phase:** **(4)** Choose a language **(5)** Separation of Concern (Modularity) **(6)** Apply software patterns | Individual / team |\n| **Testing Phase:** **(7)** Unit testing / Integration / Performance / Security | Individual / team |\n| **Documentation:** **(8)** User documentation/ developer / Tutorials / publication | Individual / team |\n| **Distribution:** **(9)** Choose a licence **(11.** publication **(12)** make you software public | Individual / team |\n\n===\n\n\n\n## Research Software lifecycle \n\n\n
\n\n
\n\n===\n\n\n\n## Research software in all scientific disciplines\n \n
\n\n
\n\n===\n\n\n\n## Research software requirements\n \n
\n\n
\n\n===\n\n\n\n## Re-use existing open-Source software\n\n
\n\n- Available for free*\n- Maintained by volunteers\n- Documentation not always up to date\n\n
\n\n
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\nPhoto by xxxx on xxxx\n
\n \n\nNote: \n\nHow-to\n - **How:** Search engines: searchcode.com\" or \"searchcode.com\n - **Where:** Platforms and directories for open-source software, such as GitHub, GitLab, SourceForge, and Bitbucket\n - **Easy Install**: Package Mangers: make it easy to find and install open-source libraries: pip (Python), npm(Node.js), and RubyGems,(Ruby) …\n - **Under a License**: Apache, MIT, GPL, LGPL, BCD CC*\n - A software license is a legal agreement that define the terms and conditions under which software can be used, distributed, modified, and shared\n\n\nThese licenses serve to protect the rights of the software developer while also defining what users are allowed to do with the software. \nHere are some key components typically found in software licenses:\n\n1. **License Grant:** This section describes what the software license allows users to do. It may specify whether the software can be used, copied, modified, or distributed.\n\n2. **Restrictions:** These are limitations placed on the user, such as restrictions on reverse engineering, decompiling, or using the software for specific purposes.\n\n3. **Usage Terms:** This section may include usage terms, such as the number of users or devices that can use the software, the duration of the license, and whether the license is transferable.\n\n4. **Distribution:** If the software can be distributed, the license may specify the conditions under which it can be shared or sold.\n\n5. **Modification:** If users are allowed to modify the software, the license might specify the terms for sharing those modifications, including whether they must be open source or can remain proprietary.\n\n6. **Attribution:** Some licenses require users to provide attribution to the original software developer in their own work.\n\n7. **Warranty and Liability:** This section outlines the warranty, if any, provided with the software. It may also specify the extent of liability of the software developer for any damages or issues arising from the software's use.\n\n8. **Termination:** The license may include conditions under which it can be terminated, such as non-compliance with the license terms.\n\n9. **Governing Law:** This indicates which jurisdiction's laws will govern the license agreement.\n\nCommon types of software licenses include open source licenses like the MIT License, Apache License, and GNU General Public License (GPL), as well as proprietary licenses used for commercial software. Each type of license comes with its own set of terms and conditions, ranging from highly permissive (e.g., MIT License) to more restrictive (e.g., some proprietary licenses).\n\nIt's essential to carefully read and understand the terms of a software license before using or distributing the software, as violation of the license terms can have legal consequences. Additionally, some licenses are not compatible with one another, so it's crucial to ensure that the software's licenses align with your intended use and distribution.\n\n\n===\n\n\n\n## Programming \n\n\n There are several programming paradigms, which are different approaches to writing code and structuring programs\n\n
\n\n- Procedural Programming\n - Object-Oriented Programming \n - Functional Programming \n - Declarative Programming\n - Logic Programming\n - Concurrent and Parallel Programming\n - Event-Driven Programming\n
\n\n
\n\n
\n\n
\nPhoto by xxxx on xxxx\n
\n\nNote: \n\n- Don’t get into religious programming discussion and attitude.\n- Choose based on what fits best\n - Expressiveness\n - Ease of use\n - Eco-systems (libraries, tools for debugging, community)\n- Imperative Programming: In imperative programming, you provide explicit instructions for the computer to follow, specifying the sequence of steps to achieve a particular result. Languages like C, C++, and Pascal are often associated with this paradigm.\n- Procedural Programming: Procedural programming is a subset of imperative programming where code is organized into procedures or functions. It promotes code reusability and maintainability. C and Pascal are examples of languages that support procedural programming.\n- Object-Oriented Programming (OOP): In OOP, programs are structured around objects, which encapsulate data and behavior. Key concepts include classes, inheritance, and polymorphism. Java, C++, and Python are popular OOP languages.\n- Functional Programming (FP): Functional programming treats computation as the evaluation of mathematical functions and avoids changing state and mutable data. It relies heavily on functions as first-class citizens. Languages like Haskell, Lisp, and Erlang are associated with this paradigm.\n- Declarative Programming: In declarative programming, you specify what you want to achieve without detailing how it should be done. SQL, for example, is a declarative language used for querying databases.\n- Logic Programming: Logic programming is based on formal logic and rule-based systems. Prolog is a well-known logic programming language used for symbolic reasoning and knowledge representation.\n- Event-Driven Programming: This paradigm is common in GUI programming and systems where code responds to events or messages. Event-driven languages include JavaScript and Python (with libraries like Tkinter).\nAspect-Oriented Programming (AOP): AOP is a complement to OOP. It focuses on separating cross-cutting concerns (e.g., logging, security) from the main program logic. AspectJ is a popular AOP extension for Java.\n- Concurrent and Parallel Programming: These paradigms address multi-threading, parallel processing, and synchronization. Languages like Go, Erlang, and Java provide features for concurrent and parallel programming.\n- Meta-Programming: Meta-programming is a programming technique where code generates, modifies, or analyzes other code. It's often used in code generation and domain-specific languages.\n- Scripting: Scripting languages are designed for quick, dynamic, and interpreted scripting tasks. Python, Ruby, and - JavaScript are scripting languages commonly used for automation and web development.\n- Array Programming: Array programming emphasizes operations on entire arrays rather than individual elements. Languages like MATLAB and NumPy (Python library) support array programming.\n- Reactive Programming\n\n===\n\n\n\n\n## Programming Languages\n\n\n\n
\n\nDon’t get into religious programming discussion and attitude\\.\n- Choose based on what fits best\n - Expressiveness\n - Ease of use\n - Eco-systems (libraries, tools for debugging, community)\n\n
\n\n
\n\n
\n
\nPhoto by xxxx on xxxx\n
\n\nNote: \n\n[https://en.wikipedia.org/wiki/Comparison_of_multi-paradigm_programming_languages](https://en.wikipedia.org/wiki/Comparison_of_multi-paradigm_programming_languages) \n\n===\n\n\n\n## Software Architecture\n\n
\n\nDesign\n- Functional vs Non-functional requirements\n- Architecture style\n- Component design\n- Software patterns\n- Scalability\n- Security Performance\n- Deployment and hosting\n- Monitoring and logging\n- Compliance and standards\n- Change management\n- Review and validation\n
\n\n
\n\n
\n
\nPhoto by xxxx on xxxx\n
\n\nNote:\n - Use appropriate Tools:\n - provide features for creating architectural diagrams, defining components, and visualizing the structure of a software system\n\n[https://softwarearchitecture.tools/#diagramming-tools](https://softwarearchitecture.tools/#diagramming-tools)\n\n \n\n===\n\n\n\n# Software engineering best practices\n\n\n
\n\n- Modular and Scalable Design\n- Version control\n- Coding Standards (Readability/code formatting)\n- Test-Driven Development\n- Code Reviews\n- continuous Integration (CI) and Continuous Delivery (CD)\n- Bug Tracking and Issue Management\n- Security Practices\n- Performance Optimization\n- User Experience (UX) and Usability\n- Documentation\n
\n\n
\n\n
\n\n\nNote:\n\nUse of Integrated Development Environment (IDE)\n\nhttps://sourceforge\\.net/directory/integrated\\-development\\-environments\\-ide/mac/\n\n===\n\n\n\n## DevOpsTeam development\n\n
\n\n- DevOps foster a culture of collaboration and continuous improvement\n - practices, principles enhance collaboration and communication between software development and IT operations teams\n- The primary objective is to\n - increase the speed, quality, and reliability\n - Continuous integration (CI)\n - Monitoring and Feedback\n - Security\n - Microservices and containers\n - Scalability and Resilience\n - DevOps toolchain\n
\n
\n\n
\n\nNote:\n\n- DevOpsis not a one-size-fits-all approach, and its implementation can vary depending on an organization's specific needs and constraints.The primary objective is to increase the speed, quality, and reliability of software delivery\n\n===\n\n\n\n## Reusability of Research software\n\n\n
\n\n- Does following SE best practices guarantee re-usability and user adoption?\n - it should in increase adoption,\n - Beyond FAIR\n
\n
\n\n
\n\n\nNote:\n\n- Identify\n - the competition\n - the Unique seling point\n- Reach out potential\n - Tutorials/demos/papers\n- Dont forget to make the software repository public\n\n===\n\n\n\n## Takeaway\n\n
\n\n- Developing a software is\n - a long and tedious process\n - it worth to defend and sustaining but not at all costs\n- Suggestions: \n - Don’t fall in Love with your software When needed drop it and use another solution\n
\n
\n\n
\n\n===\n\n\n\nwww.esciencecenter.nl\n\ninfo@esciencecenter.nl\n \n020 - 460 47 70 \n"},{"_path":"/modules/code-review/teaching_material","_dir":"code-review","_draft":false,"_partial":false,"_locale":"","title":"Teaching Material","description":"","type":"exercise","order":3,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"teaching-material"},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Teaching Material"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Teaching material"}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"How to Do Code Reviews Like a Human "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=0t4_MfHgb_A","rel":["nofollow"]},"children":[{"type":"text","value":"PyGotham2018"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Amazing Code Reviews: Creating a Superhero Collective "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=ly86Wq_E18o","rel":["nofollow"]},"children":[{"type":"text","value":"Talk@GOto2019"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Code review guidelines "},{"type":"element","tag":"a","props":{"href":""},"children":[]}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"teaching-material","depth":3,"text":"Teaching Material"}]}},"_type":"markdown","_id":"local_fs:modules:Code-review:teaching_material.md","_source":"local_fs","_file":"modules/Code-review/teaching_material.md","_extension":"md","plainText":"---\ntitle: Teaching Material \ntype: exercise\norder: 3\n---\n\n### **Teaching Material**\n\n\nTeaching material\n\n- How to Do Code Reviews Like a Human [PyGotham2018](https://www.youtube.com/watch?v=0t4_MfHgb_A)\n- Amazing Code Reviews: Creating a Superhero Collective [Talk@GOto2019](https://www.youtube.com/watch?v=ly86Wq_E18o)\n- Code review guidelines []()\n"},{"_path":"/modules/collaboration-using-github/context","_dir":"collaboration-using-github","_draft":false,"_partial":false,"_locale":"","title":"Background unit 2","description":"","type":"reading","order":1,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"background"},"children":[{"type":"text","value":"Background"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Unit 2 covered only the basics of GitHub, in this Unit you will learn how to use GitHub to collaborate with your project team and beyond in an efficient and proper manner. In Unit 2 you will learn the collaboration mechanisms offered by GitHub."}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"background","depth":3,"text":"Background"}]}},"_type":"markdown","_id":"local_fs:modules:Collaboration-using-github:context.md","_source":"local_fs","_file":"modules/Collaboration-using-github/context.md","_extension":"md","plainText":"---\ntitle: Background unit 2 \ntype: reading\norder: 1\n---\n\n### Background \nUnit 2 covered only the basics of GitHub, in this Unit you will learn how to use GitHub to collaborate with your project team and beyond in an efficient and proper manner. In Unit 2 you will learn the collaboration mechanisms offered by GitHub.\n"},{"_path":"/modules/collaboration-using-github/further_reading","_dir":"collaboration-using-github","_draft":false,"_partial":false,"_locale":"","title":"Further Reading","description":"","type":"reading","order":5,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"further-reading"},"children":[{"type":"text","value":"Further Reading"}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"further-reading","depth":3,"text":"Further Reading"}]}},"_type":"markdown","_id":"local_fs:modules:Collaboration-using-github:further_reading.md","_source":"local_fs","_file":"modules/Collaboration-using-github/further_reading.md","_extension":"md","plainText":"---\ntitle: Further Reading \ntype: reading\norder: 5\n---\n\n### Further Reading\n\n"},{"_path":"/modules/collaboration-using-github","_dir":"modules","_draft":false,"_partial":false,"_locale":"","title":"Collaboration using GitHub","description":"Photo by TODO on Unsplash","category":"Module3","order":2,"author":"eScience Center","abstract":null,"thumbnail":"github-collaboration.jpg","visibility":"visible","body":{"type":"root","children":[{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Photo by "},{"type":"element","tag":"a","props":{"href":""},"children":[{"type":"text","value":"TODO"}]},{"type":"text","value":" on "},{"type":"element","tag":"a","props":{"href":"https://csharp-station.com/Tutorial/CSharp/Lesson19"},"children":[{"type":"text","value":"Unsplash"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:Collaboration-using-github:index.md","_source":"local_fs","_file":"modules/Collaboration-using-github/index.md","_extension":"md","plainText":"---\ntitle: Collaboration using GitHub\ncategory: Module3\norder: 2\nauthor: eScience Center\nabstract: \nthumbnail: \"github-collaboration.jpg\"\nvisibility: visible\n---\n\n\nPhoto by TODO on Unsplash\n \n \n"},{"_path":"/modules/collaboration-using-github/info","_dir":"collaboration-using-github","_draft":false,"_partial":false,"_locale":"","title":"Learning objectives","description":"","type":"info","order":0,"body":{"type":"root","children":[{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Understand GitHub Collaboration Mechanisms: Learners will be able to describe key GitHub collaboration features, including pull requests, branching, merging, and team workflows, and understand how to use these tools to collaborate efficiently within a project team."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Apply GitHub Workflow Best Practices: Learners will be able to implement GitHub workflows, such as using branches for feature development and handling pull requests, to ensure smooth collaboration and code integration across teams."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Understand GitHub Actions and CI/CD Pipelines"},{"type":"element","tag":"div","props":{},"children":[]},{"type":"text","value":" will be able to explain the basic concepts of GitHub Actions, set up simple CI/CD pipelines, and automate testing and deployment processes to improve software delivery efficiency."},{"type":"element","tag":"br","props":{},"children":[]}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:Collaboration-using-github:info.md","_source":"local_fs","_file":"modules/Collaboration-using-github/info.md","_extension":"md","plainText":"---\ntitle: Learning objectives\ntype: info\norder: 0\n---\n\n- Understand GitHub Collaboration Mechanisms: Learners will be able to describe key GitHub collaboration features, including pull requests, branching, merging, and team workflows, and understand how to use these tools to collaborate efficiently within a project team.\n\n- Apply GitHub Workflow Best Practices: Learners will be able to implement GitHub workflows, such as using branches for feature development and handling pull requests, to ensure smooth collaboration and code integration across teams.\n\n- Understand GitHub Actions and CI/CD Pipelines:Learners will be able to explain the basic concepts of GitHub Actions, set up simple CI/CD pipelines, and automate testing and deployment processes to improve software delivery efficiency.\n"},{"_path":"/modules/collaboration-using-github/instructions","_dir":"collaboration-using-github","_draft":false,"_partial":false,"_locale":"","title":"Unit 2 Instructions","description":"","type":"reading","order":2,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"instructions"},"children":[{"type":"text","value":"Instructions"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"To learn the collaboration features of GitHub, we have selected two short videos which cover collaboration concepts in GitHub: pull request, Branching, Merging & Team Workflow [1]"},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"2"}]},{"type":"text","value":". To finish off with learning GitHub, we propose a lecture which focuses on GitHub actions Basic Concepts and CI/CD Pipeline "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"3"}]},{"type":"text","value":"."}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"To complete Unit 2, you are expected to:"}]}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Read/watch the suggested "},{"type":"element","tag":"a","props":{"href":"http://localhost:3000/internal-training/modules/Software-testing/teaching_material","rel":["nofollow"]},"children":[{"type":"text","value":"teaching material"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Please send the list of questions to your coach one day before the weekly meetings.."}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Time expected to complete this unit: "},{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"4 hours"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"instructions","depth":3,"text":"Instructions"}]}},"_type":"markdown","_id":"local_fs:modules:Collaboration-using-github:instructions.md","_source":"local_fs","_file":"modules/Collaboration-using-github/instructions.md","_extension":"md","plainText":"---\ntitle: Unit 2 Instructions \ntype: reading\norder: 2\n---\n\n### Instructions \nTo learn the collaboration features of GitHub, we have selected two short videos which cover collaboration concepts in GitHub: pull request, Branching, Merging & Team Workflow [1][2]. To finish off with learning GitHub, we propose a lecture which focuses on GitHub actions Basic Concepts and CI/CD Pipeline [3]. \n \n**To complete Unit 2, you are expected to:** \n\n - Read/watch the suggested [teaching material](http://localhost:3000/internal-training/modules/Software-testing/teaching_material) \n - Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach. \n - Please send the list of questions to your coach one day before the weekly meetings.. \n\nTime expected to complete this unit: **4 hours**\n"},{"_path":"/modules/collaboration-using-github/slides-collaboration-using-github","_dir":"collaboration-using-github","_draft":false,"_partial":false,"_locale":"","title":"Collaboration using GitHub","description":"===","type":"slides","order":3,"body":{"type":"root","children":[{"type":"element","tag":"h1","props":{"id":"collaboration-using-github"},"children":[{"type":"text","value":"Collaboration using GitHub"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"h2","props":{"id":"collaboration-using-github"},"children":[{"type":"text","value":"Collaboration using GitHub "},{"type":"element","tag":"todo","props":{},"children":[]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"http://www.esciencecenter.nl","rel":["nofollow"]},"children":[{"type":"text","value":"www.esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"mailto:info@esciencecenter.nl"},"children":[{"type":"text","value":"info@esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"020 - 460 47 70"}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"collaboration-using-github","depth":2,"text":"Collaboration using GitHub "}]}},"_type":"markdown","_id":"local_fs:modules:Collaboration-using-github:slides-collaboration-using-github.md","_source":"local_fs","_file":"modules/Collaboration-using-github/slides-collaboration-using-github.md","_extension":"md","plainText":"---\ntitle: Collaboration using GitHub \ntype: slides\norder: 3\n---\n\n\n\n# Collaboration using GitHub\n\n===\n\n\n\n## Collaboration using GitHub \n \n\n===\n\n\n\nwww.esciencecenter.nl\n\ninfo@esciencecenter.nl\n \n020 - 460 47 70 \n"},{"_path":"/modules/collaboration-using-github/teaching_material","_dir":"collaboration-using-github","_draft":false,"_partial":false,"_locale":"","title":"Teaching Material","description":"","type":"exercise","order":3,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"teaching-material"},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Teaching Material"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Teaching material"}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Collaborative work with GitHub "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=MnUd31TvBoU","rel":["nofollow"]},"children":[{"type":"text","value":"Online Lecture"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"GITHUB PULL REQUEST, Branching, Merging & Team Workflow "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=oFYyTZwMyAg","rel":["nofollow"]},"children":[{"type":"text","value":"onlineVideo"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"GitHub Actions Tutorial - 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Contributing to OSS is not only beneficial to individual developers, but also to organizations ."}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"background","depth":3,"text":"Background"}]}},"_type":"markdown","_id":"local_fs:modules:Contribution-to-open-source-software:context.md","_source":"local_fs","_file":"modules/Contribution-to-open-source-software/context.md","_extension":"md","plainText":"---\ntitle: Background unit 4 \ntype: reading\norder: 1 \n---\n\n### Background \nWhile using OSS libraries increases the efficiency of the developers, contributing to OSS helps them to gain a much deeper knowledge about the software, build confidence and your reputation and can leverage their career. Contributing to OSS is not only beneficial to individual developers, but also to organizations .\n"},{"_path":"/modules/contribution-to-open-source-software/further_reading","_dir":"contribution-to-open-source-software","_draft":false,"_partial":false,"_locale":"","title":"Further Reading","description":"","type":"reading","order":6,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"further-reading"},"children":[{"type":"text","value":"Further Reading"}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"further-reading","depth":3,"text":"Further Reading"}]}},"_type":"markdown","_id":"local_fs:modules:Contribution-to-open-source-software:further_reading.md","_source":"local_fs","_file":"modules/Contribution-to-open-source-software/further_reading.md","_extension":"md","plainText":"---\ntitle: Further Reading \ntype: reading\norder: 6\n---\n\n### Further 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will be able to demonstrate how to connect with the OSS community, communicate with project maintainers, and contribute in meaningful ways that align with the project's goals while learning from the collaborative environment."}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:Contribution-to-open-source-software:info.md","_source":"local_fs","_file":"modules/Contribution-to-open-source-software/info.md","_extension":"md","plainText":"---\ntitle: Learning objectives\ntype: info\norder: 0\n---\n\n- Understand the Benefits of Contributing to Open-S: ource Software (OSS): Learners will be able to explain how contributing to OSS can deepen their knowledge of software, enhance their career opportunities, and build a professional reputation, both individually and within an organization.\n\n- Learn the Process of Contributing to OSS Projects: Learners will be able to outline the steps involved in contributing to OSS, including finding 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You will learn how to find your project and contributions to start with, how to connect with the community to make sure your contributions are useful, and the many diverse types of contributions you can make."},{"type":"element","tag":"br","props":{},"children":[]},{"type":"text","value":"\nTo complete Unit 4, you are expected to:"}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Read/watch the suggested teaching material."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Please send the list of questions to your coach one day before."}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Important: the proposed material includes hands-on assignments. Do try them and if you encounter issues you cannot solve, do share them with your coach."}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Time expected to complete this unit: "},{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"4 hours"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"instructions","depth":3,"text":"Instructions"}]}},"_type":"markdown","_id":"local_fs:modules:Contribution-to-open-source-software:instructions.md","_source":"local_fs","_file":"modules/Contribution-to-open-source-software/instructions.md","_extension":"md","plainText":"---\ntitle: Unit 4 Instructions \ntype: reading\norder: 2\n---\n\n### Instructions \nFor Unit 4, we selected three references that can help describe the process of contributing to existing Open source software. [1] is talk where the speaker shares her experience with contributing to Cucumber, including making an early mistake (merging something that was not ready yet) and fixing it with the support of core maintainers, and still feeling welcome. You will learn how to find your project and contributions to start with, how to connect with the community to make sure your contributions are useful, and the many diverse types of contributions you can make. \nTo complete Unit 4, you are expected to: \n\n - Read/watch the suggested teaching material. \n\n - Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach. \n\n - Please send the list of questions to your coach one day before. \n\nImportant: the proposed material includes hands-on assignments. Do try them and if you encounter issues you cannot solve, do share them with your coach. \n\nTime expected to complete this unit: **4 hours**\n"},{"_path":"/modules/contribution-to-open-source-software/slides-contributing-to-open-source-software","_dir":"contribution-to-open-source-software","_draft":false,"_partial":false,"_locale":"","title":"Contributing to Open Source software","description":"===","type":"slides","order":3,"body":{"type":"root","children":[{"type":"element","tag":"h1","props":{"id":"contributing-to-open-source-software"},"children":[{"type":"text","value":"Contributing to Open Source software"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"h2","props":{"id":"contributing-to-open-source-software"},"children":[{"type":"text","value":"Contributing to Open Source software "},{"type":"element","tag":"todo","props":{},"children":[]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"http://www.esciencecenter.nl","rel":["nofollow"]},"children":[{"type":"text","value":"www.esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"mailto:info@esciencecenter.nl"},"children":[{"type":"text","value":"info@esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"020 - 460 47 70"}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"contributing-to-open-source-software","depth":2,"text":"Contributing to Open Source software "}]}},"_type":"markdown","_id":"local_fs:modules:Contribution-to-open-source-software:slides-contributing-to-open-source-software.md","_source":"local_fs","_file":"modules/Contribution-to-open-source-software/slides-contributing-to-open-source-software.md","_extension":"md","plainText":"---\ntitle: Contributing to Open Source software \ntype: slides\norder: 3\n---\n\n\n\n# Contributing to Open Source software \n\n===\n\n\n\n## Contributing to Open Source software \n \n\n===\n\n\n\nwww.esciencecenter.nl\n\ninfo@esciencecenter.nl\n \n020 - 460 47 70 \n"},{"_path":"/modules/contribution-to-open-source-software/teaching_material","_dir":"contribution-to-open-source-software","_draft":false,"_partial":false,"_locale":"","title":"Teaching Material","description":"","type":"exercise","order":5,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"teaching-material"},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Teaching 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Material"}]}},"_type":"markdown","_id":"local_fs:modules:Contribution-to-open-source-software:teaching_material.md","_source":"local_fs","_file":"modules/Contribution-to-open-source-software/teaching_material.md","_extension":"md","plainText":"---\ntitle: Teaching Material \ntype: exercise\norder: 5\n---\n\n### **Teaching Material**\n\n- How I Started Contributing to Open Source and Why You Should Too [Talk](https://youtu.be/GAqfMNB-YBU) [slides](https://speakerdeck.com/mlvandijk/collaborating-on-open-source-software-8d720d71-a31b-4079-8c67-08dbda6c0aac) \n- Complete Guide to Open Source - How to Contribute [Lecture](https://www.youtube.com/watch?v=yzeVMecydCE) \n"},{"_path":"/modules/data-processing-and-data-storage/context","_dir":"data-processing-and-data-storage","_draft":false,"_partial":false,"_locale":"","title":"Background unit 7","description":"","type":"reading","order":1,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"background"},"children":[{"type":"text","value":"Background"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"For Unit 7, we selected a number of references which will help you go beyond just knowing the syntax of the language.\n"},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=Pg3UeB-5FdA","rel":["nofollow"]},"children":[{"type":"text","value":"teaching material 1"}]},{"type":"text","value":" is a talk given at a conference in 2017 which goes over the common programming paradigm and explains the similarities and the differences.\n"},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=Ps8jOj7diA0","rel":["nofollow"]},"children":[{"type":"text","value":"teaching material 2"}]},{"type":"text","value":" is the first lecture of course at Stanford university which aims to teach several programming languages.\nThe lecture is a general introduction to the course, it stresses the intellectual value of learning a programming language which is to study the paradigm they represent, so do not focus on the details but more on how the lecturer makes the link between a language and its paradigm."}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"background","depth":3,"text":"Background"}]}},"_type":"markdown","_id":"local_fs:modules:Data-processing-and-data-storage:context.md","_source":"local_fs","_file":"modules/Data-processing-and-data-storage/context.md","_extension":"md","plainText":"---\ntitle: Background unit 7 \ntype: reading\norder: 1\n---\n\n### Background \n\nFor Unit 7, we selected a number of references which will help you go beyond just knowing the syntax of the language.\n[teaching material 1](https://www.youtube.com/watch?v=Pg3UeB-5FdA) is a talk given at a conference in 2017 which goes over the common programming paradigm and explains the similarities and the differences. \n[teaching material 2](https://www.youtube.com/watch?v=Ps8jOj7diA0) is the first lecture of course at Stanford university which aims to teach several programming languages. \nThe lecture is a general introduction to the course, it stresses the intellectual value of learning a programming language which is to study the paradigm they represent, so do not focus on the details but more on how the lecturer makes the link between a language and its paradigm.\n"},{"_path":"/modules/data-processing-and-data-storage/further_reading","_dir":"data-processing-and-data-storage","_draft":false,"_partial":false,"_locale":"","title":"Further Reading","description":"","type":"reading","order":5,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"further-reading"},"children":[{"type":"text","value":"Further 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54mn"}]},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=chp71nEc320","rel":["nofollow"]},"children":[{"type":"text","value":"time series from scratch"}]},{"type":"text","value":")"}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Data Processing in Python with Pandas, by Daniel Chen "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=5rNu16O3YNE","rel":["nofollow"]},"children":[{"type":"text","value":"SciPy 2019 Tutorial, 3hours"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Data Analysis with Python - Full Course for Beginners "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=5rNu16O3YNE","rel":["nofollow"]},"children":[{"type":"text","value":"Online course, 4hours"}]}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"further-reading","depth":3,"text":"Further Reading"}]}},"_type":"markdown","_id":"local_fs:modules:Data-processing-and-data-storage:further_reading.md","_source":"local_fs","_file":"modules/Data-processing-and-data-storage/further_reading.md","_extension":"md","plainText":"---\ntitle: Further Reading \ntype: reading\norder: 5\n---\n\n### Further Reading\n\n- Data- Manipulating Strings, by Daniel Shiffman, processing.org [Tutorial](https://p5.readthedocs.io/en/latest/tutorials/data.html)\n\n- Processing-in-Memory Course: How to Evaluate Data Movement Bottlenecks [talk, 1 hours](https://www.youtube.com/watch?v=An2lACOASdo)\n\n- Time Series Forecasting Theory, by [time series, 54mn](https://www.youtube.com/watch?v=An2lACOASdo)[time series from scratch](https://www.youtube.com/watch?v=chp71nEc320))\n\n- Data Processing in Python with Pandas, by Daniel Chen [SciPy 2019 Tutorial, 3hours](https://www.youtube.com/watch?v=5rNu16O3YNE)\n\n- Data Analysis with Python - Full Course for Beginners [Online course, 4hours](https://www.youtube.com/watch?v=5rNu16O3YNE)\n"},{"_path":"/modules/data-processing-and-data-storage","_dir":"modules","_draft":false,"_partial":false,"_locale":"","title":"Data processing and data storage","description":"Photo by TODO on Unsplash","category":"Module1","order":7,"author":"eScience Center","abstract":null,"thumbnail":"data-processing.png","visibility":"visible","body":{"type":"root","children":[{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Photo by "},{"type":"element","tag":"a","props":{"href":""},"children":[{"type":"text","value":"TODO"}]},{"type":"text","value":" on "},{"type":"element","tag":"a","props":{"href":"https://csharp-station.com/Tutorial/CSharp/Lesson19"},"children":[{"type":"text","value":"Unsplash"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:Data-processing-and-data-storage:index.md","_source":"local_fs","_file":"modules/Data-processing-and-data-storage/index.md","_extension":"md","plainText":"---\ntitle: Data processing and data storage \ncategory: Module1\norder: 7 \nauthor: eScience Center\nabstract: \nthumbnail: \"data-processing.png\"\nvisibility: visible\n---\n\n\nPhoto by TODO on Unsplash\n \n \n"},{"_path":"/modules/data-processing-and-data-storage/info","_dir":"data-processing-and-data-storage","_draft":false,"_partial":false,"_locale":"","title":"Learning objectives","description":"Unit 7 aims to raise your awareness about the fact that when you choose a programming language for your project.","type":"info","order":0,"body":{"type":"root","children":[{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Unit 7 aims to raise your awareness about the fact that when you choose a programming language for your project."}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Understand Data Preparation Techniques: Learners will be able to describe and apply basic data preparation methods, including cleaning, transforming, and organizing data for effective analysis."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Explore Data Storage and Access Technologies: Learners will be able to explain the principles of data storage and access, identifying suitable technologies and approaches for managing structured and unstructured data."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Analyze Data Using Descriptive Statistics: Learners will be able to calculate and interpret descriptive statistical measures, such as mean, median, and standard deviation, to summarize and analyze data effectively."}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Note"}]},{"type":"text","value":": It is advised that you develop more in-depth knowledge about the programming paradigm you will use during the project which is beyond the scope of this unit."}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:Data-processing-and-data-storage:info.md","_source":"local_fs","_file":"modules/Data-processing-and-data-storage/info.md","_extension":"md","plainText":"---\ntitle: Learning objectives\ntype: info\norder: 0\n---\n\nUnit 7 aims to raise your awareness about the fact that when you choose a programming language for your project.\n\n\n- Understand Data Preparation Techniques: Learners will be able to describe and apply basic data preparation methods, including cleaning, transforming, and organizing data for effective analysis.\n\n- Explore Data Storage and Access Technologies: Learners will be able to explain the principles of data storage and access, identifying suitable technologies and approaches for managing structured and unstructured data.\n\n- Analyze Data Using Descriptive Statistics: Learners will be able to calculate and interpret descriptive statistical measures, such as mean, median, and standard deviation, to summarize and analyze data effectively.\n\n\n**Note**: It is advised that you develop more in-depth knowledge about the programming paradigm you will use during the project which is beyond the scope of this unit.\n"},{"_path":"/modules/data-processing-and-data-storage/instructions","_dir":"data-processing-and-data-storage","_draft":false,"_partial":false,"_locale":"","title":"Unit 7 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This will be used for the discussions during the weekly consultation hours with the coach."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Please send the list of questions to your coach one day before."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Practical hands-on for this unit are provided by the material used for eScience Center External Training program "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"3"}]},{"type":"text","value":".\nYou can do the hands-on individually or join a the eScience Center external workshop.\nCheck the eScience "},{"type":"element","tag":"a","props":{"href":"https://www.esciencecenter.nl/digital-skills/","rel":["nofollow"]},"children":[{"type":"text","value":"Digital-skills"}]},{"type":"text","value":" for the workshops schedule,\ncontact the "},{"type":"element","tag":"a","props":{"href":"mailto:training@esciencecenter.nl"},"children":[{"type":"text","value":"eScience Center Training"}]},{"type":"text","value":" to check whether there is still space for you to join."}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"instructions","depth":3,"text":"Instructions"}]}},"_type":"markdown","_id":"local_fs:modules:Data-processing-and-data-storage:instructions.md","_source":"local_fs","_file":"modules/Data-processing-and-data-storage/instructions.md","_extension":"md","plainText":"---\ntitle: Unit 7 Instructions \ntype: reading\norder: 2\n---\n\n### Instructions \n\nTo complete Unit 7, you are expected to:\n\n - Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach.\n\n - Please send the list of questions to your coach one day before.\n\n - Practical hands-on for this unit are provided by the material used for eScience Center External Training program [3]. \n You can do the hands-on individually or join a the eScience Center external workshop. \n Check the eScience [Digital-skills](https://www.esciencecenter.nl/digital-skills/) for the workshops schedule, \n contact the [eScience Center Training](mailto:training@esciencecenter.nl) to check whether there is still space for you to join.\n"},{"_path":"/modules/data-processing-and-data-storage/slides-data-processing-and-data-storage","_dir":"data-processing-and-data-storage","_draft":false,"_partial":false,"_locale":"","title":"Data-processing-and-data-storage","description":"===","type":"slides","order":3,"body":{"type":"root","children":[{"type":"element","tag":"h1","props":{"id":"data-processing-and-data-storage"},"children":[{"type":"text","value":"Data-processing-and-data-storage"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"h2","props":{"id":"data-processing-and-data-storage"},"children":[{"type":"text","value":"Data-processing-and-data-storage "},{"type":"element","tag":"todo","props":{},"children":[]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"http://www.esciencecenter.nl","rel":["nofollow"]},"children":[{"type":"text","value":"www.esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"mailto:info@esciencecenter.nl"},"children":[{"type":"text","value":"info@esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"020 - 460 47 70"}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"data-processing-and-data-storage","depth":2,"text":"Data-processing-and-data-storage "}]}},"_type":"markdown","_id":"local_fs:modules:Data-processing-and-data-storage:slides-data-processing-and-data-storage.md","_source":"local_fs","_file":"modules/Data-processing-and-data-storage/slides-data-processing-and-data-storage.md","_extension":"md","plainText":"---\ntitle: Data-processing-and-data-storage \ntype: slides\norder: 3\n---\n\n\n\n# Data-processing-and-data-storage \n\n===\n\n\n\n## Data-processing-and-data-storage \n \n\n===\n\n\n\nwww.esciencecenter.nl\n\ninfo@esciencecenter.nl\n \n020 - 460 47 70 \n"},{"_path":"/modules/data-processing-and-data-storage/teaching_material","_dir":"data-processing-and-data-storage","_draft":false,"_partial":false,"_locale":"","title":"Teaching Material","description":"","type":"exercise","order":3,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"teaching-material"},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Teaching Material"}]}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Data Preprocessing, Cleaning/Normalization, Mark Crowley "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=WPXQbMabSWI","rel":["nofollow"]},"children":[{"type":"text","value":"online lecture, 45mn"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Fundamentals of data storage and access: "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=O_c7lzNbcKo&list=PLTCrU9sGyburBw9wNOHebv9SjlE4Elv5a&index=6","rel":["nofollow"]},"children":[{"type":"text","value":"database types, relational and NoSQL, 18mn"}]},{"type":"text","value":" "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=YCb-tDQWrXk","rel":["nofollow"]},"children":[{"type":"text","value":"Sharding, 17mn"}]},{"type":"text","value":" "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=J6CBdSCB_fY&list=PLTCrU9sGyburBw9wNOHebv9SjlE4Elv5a&index=11","rel":["nofollow"]},"children":[{"type":"text","value":"messsage queues, 22mn"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Introduction to Descriptive Statistics "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=QoQbR4lVLrs","rel":["nofollow"]},"children":[{"type":"text","value":"descriptive statistics, 13mn"}]},{"type":"text","value":" and "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=y_-QP9QLoLo","rel":["nofollow"]},"children":[{"type":"text","value":"data visualization methods, 60mn"}]}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Time expected to complete this unit: "},{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"4 hours"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"teaching-material","depth":3,"text":"Teaching Material"}]}},"_type":"markdown","_id":"local_fs:modules:Data-processing-and-data-storage:teaching_material.md","_source":"local_fs","_file":"modules/Data-processing-and-data-storage/teaching_material.md","_extension":"md","plainText":"---\ntitle: Teaching Material \ntype: exercise\norder: 3\n---\n\n### **Teaching Material**\n\n- Data Preprocessing, Cleaning/Normalization, Mark Crowley [online lecture, 45mn](https://www.youtube.com/watch?v=WPXQbMabSWI)\n\n- Fundamentals of data storage and access: [database types, relational and NoSQL, 18mn](https://www.youtube.com/watch?v=O_c7lzNbcKo&list=PLTCrU9sGyburBw9wNOHebv9SjlE4Elv5a&index=6) [Sharding, 17mn](https://www.youtube.com/watch?v=YCb-tDQWrXk) [messsage queues, 22mn](https://www.youtube.com/watch?v=J6CBdSCB_fY&list=PLTCrU9sGyburBw9wNOHebv9SjlE4Elv5a&index=11) \n\n- Introduction to Descriptive Statistics [descriptive statistics, 13mn](https://www.youtube.com/watch?v=QoQbR4lVLrs) and [data visualization methods, 60mn](https://www.youtube.com/watch?v=y_-QP9QLoLo)\n\n \nTime expected to complete this unit: **4 hours** \n"},{"_path":"/modules/data-structure-and-algorithm-complexity/context","_dir":"data-structure-and-algorithm-complexity","_draft":false,"_partial":false,"_locale":"","title":"Background unit 3","description":"","type":"reading","order":1,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"background"},"children":[{"type":"text","value":"Background"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Data structures are fundamental concepts in computer science which have a direct impact on the performance of a program. Today, in the Big Data era, understanding the basic features of data structures is a key factor which will help you to write programs that perform well and that can scale. Often, when we propose new algorithms and implement them, we have the tendency to test the implementation on a small (toy) data set, which does not give an accurate idea on the computational complexity of these algorithms. Certain algorithms might lead to long computations time or even impossible to complete within reasonable time. A Better metric for measuring the amount of time and/or space required by an algorithm for an input of a given size (n) is the algorithm complexity."}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"background","depth":3,"text":"Background"}]}},"_type":"markdown","_id":"local_fs:modules:Data-structure-and-Algorithm-complexity:context.md","_source":"local_fs","_file":"modules/Data-structure-and-Algorithm-complexity/context.md","_extension":"md","plainText":"---\ntitle: Background unit 3\ntype: reading\norder: 1\n---\n\n### Background \nData structures are fundamental concepts in computer science which have a direct impact on the performance of a program. Today, in the Big Data era, understanding the basic features of data structures is a key factor which will help you to write programs that perform well and that can scale. 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A Better metric for measuring the amount of time and/or space required by an algorithm for an input of a given size (n) is the algorithm complexity. \n"},{"_path":"/modules/data-structure-and-algorithm-complexity/further_reading","_dir":"data-structure-and-algorithm-complexity","_draft":false,"_partial":false,"_locale":"","title":"Further Reading","description":"","type":"reading","order":5,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"further-reading"},"children":[{"type":"text","value":"Further Reading"}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Data Structures and Algorithms, by John Bullinaria, School of Computer Science University of Birmingham "},{"type":"element","tag":"a","props":{"href":"https://www.cs.bham.ac.uk/~jxb/DSA/dsa.pdf","rel":["nofollow"]},"children":[{"type":"text","value":"Lecture Notes"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Data Structures and Algorithms in Python? by freeCodeCamp.org "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=pkYVOmU3MgA","rel":["nofollow"]},"children":[{"type":"text","value":"online course"}]}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"further-reading","depth":3,"text":"Further Reading"}]}},"_type":"markdown","_id":"local_fs:modules:Data-structure-and-Algorithm-complexity:further_reading.md","_source":"local_fs","_file":"modules/Data-structure-and-Algorithm-complexity/further_reading.md","_extension":"md","plainText":"---\ntitle: Further Reading \ntype: reading\norder: 5\n---\n\n### Further Reading\n\n- Data Structures and Algorithms, by John Bullinaria, School of Computer Science University of Birmingham [Lecture Notes](https://www.cs.bham.ac.uk/~jxb/DSA/dsa.pdf)\n\n- Data Structures and Algorithms in Python? by freeCodeCamp.org [online course](https://www.youtube.com/watch?v=pkYVOmU3MgA)\n"},{"_path":"/modules/data-structure-and-algorithm-complexity","_dir":"modules","_draft":false,"_partial":false,"_locale":"","title":"Data structures and algorithm complexity","description":"Photo by TODO on Unsplash","category":"Module1","order":3,"author":"eScience Center","abstract":null,"thumbnail":"data-structure-algorithms.jpeg","visibility":"visible","body":{"type":"root","children":[{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Photo by "},{"type":"element","tag":"a","props":{"href":""},"children":[{"type":"text","value":"TODO"}]},{"type":"text","value":" on "},{"type":"element","tag":"a","props":{"href":"https://csharp-station.com/Tutorial/CSharp/Lesson19"},"children":[{"type":"text","value":"Unsplash"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:Data-structure-and-Algorithm-complexity:index.md","_source":"local_fs","_file":"modules/Data-structure-and-Algorithm-complexity/index.md","_extension":"md","plainText":"---\ntitle: Data structures and algorithm complexity \ncategory: Module1\norder: 3 \nauthor: eScience Center\nabstract: \nthumbnail: \"data-structure-algorithms.jpeg\"\nvisibility: visible\n---\n\n\nPhoto by TODO on Unsplash\n \n \n"},{"_path":"/modules/data-structure-and-algorithm-complexity/info","_dir":"data-structure-and-algorithm-complexity","_draft":false,"_partial":false,"_locale":"","title":"Learning objectives","description":"after completing unit 3 you will have acquired a basic understanding of the various data structures and will be able to make an informed decision about the data structure you will be using in your projects.","type":"info","order":0,"body":{"type":"root","children":[{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"after completing unit 3 you will have acquired a basic understanding of the various data structures and will be able to make an informed decision about the data structure you will be using in your projects."}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Understand the Role of Data Structures in Performance: Learners will be able to explain how the choice of data structures impacts the performance and scalability of programs."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Evaluate Algorithm Performance with Complexity Analysis: Learners will be basic understanding of the computational complexity of algorithms using Big-O notation."}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:Data-structure-and-Algorithm-complexity:info.md","_source":"local_fs","_file":"modules/Data-structure-and-Algorithm-complexity/info.md","_extension":"md","plainText":"---\ntitle: Learning objectives\ntype: info\norder: 0\n---\nafter completing unit 3 you will have acquired a basic understanding of the various data structures and will be able to make an informed decision about the data structure you will be using in your projects. \n\n- Understand the Role of Data Structures in Performance: Learners will be able to explain how the choice of data structures impacts the performance and scalability of programs.\n\n- Evaluate Algorithm Performance with Complexity Analysis: Learners will be basic understanding of the computational complexity of algorithms using Big-O notation.\n\n"},{"_path":"/modules/data-structure-and-algorithm-complexity/instructions","_dir":"data-structure-and-algorithm-complexity","_draft":false,"_partial":false,"_locale":"","title":"Unit 3 Instructions","description":"","type":"reading","order":2,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"instructions"},"children":[{"type":"text","value":"Instructions"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"To complete Unit 3, you are expected to:"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Watch the suggested teaching material."}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach."}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Please send the list of questions to your coach one day before."}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Important: In this unit the proposed material "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=8hly31xKli0&t=854s","rel":["nofollow"]},"children":[{"type":"text","value":"teaching material 1"}]},{"type":"text","value":" contains some hands-on assignments. It is crucial to pause the video and perform the hands-on work on your laptop."}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Time expected to complete this unit: "},{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"7 hours"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"instructions","depth":3,"text":"Instructions"}]}},"_type":"markdown","_id":"local_fs:modules:Data-structure-and-Algorithm-complexity:instructions.md","_source":"local_fs","_file":"modules/Data-structure-and-Algorithm-complexity/instructions.md","_extension":"md","plainText":"---\ntitle: Unit 3 Instructions \ntype: reading\norder: 2\n---\n\n### Instructions \n\nTo complete Unit 3, you are expected to: \n\nWatch the suggested teaching material. \n\nPrepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach. \n\nPlease send the list of questions to your coach one day before. \n\nImportant: In this unit the proposed material [teaching material 1](https://www.youtube.com/watch?v=8hly31xKli0&t=854s) contains some hands-on assignments. It is crucial to pause the video and perform the hands-on work on your laptop. \n\nTime expected to complete this unit: **7 hours**\n"},{"_path":"/modules/data-structure-and-algorithm-complexity/slides-data-structure-and-algorithm-complexity","_dir":"data-structure-and-algorithm-complexity","_draft":false,"_partial":false,"_locale":"","title":"Data-structure-and-Algorithm-complexity","description":"===","type":"slides","order":3,"body":{"type":"root","children":[{"type":"element","tag":"h1","props":{"id":"data-structure-and-algorithm-complexity"},"children":[{"type":"text","value":"Data-structure-and-Algorithm-complexity"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"h2","props":{"id":"data-structure-and-algorithm-complexity"},"children":[{"type":"text","value":"Data-structure-and-Algorithm-complexity "},{"type":"element","tag":"todo","props":{},"children":[]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"http://www.esciencecenter.nl","rel":["nofollow"]},"children":[{"type":"text","value":"www.esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"mailto:info@esciencecenter.nl"},"children":[{"type":"text","value":"info@esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"020 - 460 47 70"}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"data-structure-and-algorithm-complexity","depth":2,"text":"Data-structure-and-Algorithm-complexity "}]}},"_type":"markdown","_id":"local_fs:modules:Data-structure-and-Algorithm-complexity:slides-Data-structure-and-Algorithm-complexity.md","_source":"local_fs","_file":"modules/Data-structure-and-Algorithm-complexity/slides-Data-structure-and-Algorithm-complexity.md","_extension":"md","plainText":"---\ntitle: Data-structure-and-Algorithm-complexity \ntype: slides\norder: 3\n---\n\n\n\n# Data-structure-and-Algorithm-complexity \n\n===\n\n\n\n## Data-structure-and-Algorithm-complexity \n \n\n===\n\n\n\nwww.esciencecenter.nl\n\ninfo@esciencecenter.nl\n \n020 - 460 47 70 \n"},{"_path":"/modules/data-structure-and-algorithm-complexity/teaching_material","_dir":"data-structure-and-algorithm-complexity","_draft":false,"_partial":false,"_locale":"","title":"Teaching Material","description":"","type":"exercise","order":3,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"teaching-material"},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Teaching Material"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Data structure, Algorithms, sorting & searching, freeCodeCamp.org "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=8hly31xKli0&t=854s","rel":["nofollow"]},"children":[{"type":"text","value":"Course"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"teaching-material","depth":3,"text":"Teaching Material"}]}},"_type":"markdown","_id":"local_fs:modules:Data-structure-and-Algorithm-complexity:teaching_material.md","_source":"local_fs","_file":"modules/Data-structure-and-Algorithm-complexity/teaching_material.md","_extension":"md","plainText":"---\ntitle: Teaching Material \ntype: exercise\norder: 3\n---\n\n### **Teaching Material**\n\nData structure, Algorithms, sorting & searching, freeCodeCamp.org [Course](https://www.youtube.com/watch?v=8hly31xKli0&t=854s)\n\n"},{"_path":"/modules/github-the-basics/context","_dir":"github-the-basics","_draft":false,"_partial":false,"_locale":"","title":"Background unit 1","description":"","type":"reading","order":1,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"background"},"children":[{"type":"text","value":"Background"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Millions of developers and companies build, ship, and maintain their software on GitHub — the largest and most advanced development platform in the world. At the eScience center GitHub is the main instrument used during the development of all projects, as an RSE at the center you will be using GitHub day in day out in your work. It is thus crucial that you learn the basics of GitHub as soon as possible to become operational and effective."}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"background","depth":3,"text":"Background"}]}},"_type":"markdown","_id":"local_fs:modules:Github-the-basics:context.md","_source":"local_fs","_file":"modules/Github-the-basics/context.md","_extension":"md","plainText":"---\ntitle: Background unit 1 \ntype: reading\norder: 1\n---\n\n### Background \nMillions of developers and companies build, ship, and maintain their software on GitHub — the largest and most advanced development platform in the world. At the eScience center GitHub is the main instrument used during the development of all projects, as an RSE at the center you will be using GitHub day in day out in your work. It is thus crucial that you learn the basics of GitHub as soon as possible to become operational and effective.\n"},{"_path":"/modules/github-the-basics/further_reading","_dir":"github-the-basics","_draft":false,"_partial":false,"_locale":"","title":"Further Reading","description":"","type":"reading","order":5,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"further-reading"},"children":[{"type":"text","value":"Further Reading"}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"further-reading","depth":3,"text":"Further Reading"}]}},"_type":"markdown","_id":"local_fs:modules:Github-the-basics:further_reading.md","_source":"local_fs","_file":"modules/Github-the-basics/further_reading.md","_extension":"md","plainText":"---\ntitle: Further Reading \ntype: reading\norder: 5\n---\n\n### Further Reading\n\n"},{"_path":"/modules/github-the-basics","_dir":"modules","_draft":false,"_partial":false,"_locale":"","title":"GitHub the 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\"Git-and-GitHub-Basics-Course-The-Construct.jpg\"\nvisibility: visible\n---\n\n\nPhoto by TODO on Unsplash\n \n \n"},{"_path":"/modules/github-the-basics/info","_dir":"github-the-basics","_draft":false,"_partial":false,"_locale":"","title":"Learning objectives","description":"","type":"info","order":0,"body":{"type":"root","children":[{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Understand the Basics of GitHub: Learners will be able to explain the fundamental concepts of GitHub, including version control, repositories, and the basic Git commands such as commit, add, and push, which are essential for day-to-day development tasks."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Apply GitHub for Collaborative Software Development: Learners will be able to use GitHub effectively for collaborative projects, understanding how to manage repositories, contribute to shared codebases, and track changes through commits and branches."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Navigate and Utilize GitHub Learning Resources: Learners will be able to leverage official GitHub documentation, GitHub Learning Lab, and other tutorials to enhance their GitHub skills and troubleshoot common issues, becoming more efficient in using GitHub for their development work."}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:Github-the-basics:info.md","_source":"local_fs","_file":"modules/Github-the-basics/info.md","_extension":"md","plainText":"---\ntitle: Learning objectives\ntype: info\norder: 0\n---\n\n- Understand the Basics of GitHub: Learners will be able to explain the fundamental concepts of GitHub, including version control, repositories, and the basic Git commands such as commit, add, and push, which are essential for day-to-day development tasks.\n\n- Apply GitHub for Collaborative Software Development: Learners will be able to use GitHub effectively for collaborative projects, understanding how to manage repositories, contribute to shared codebases, and track changes through commits and branches.\n\n- Navigate and Utilize GitHub Learning Resources: Learners will be able to leverage official GitHub documentation, GitHub Learning Lab, and other tutorials to enhance their GitHub skills and troubleshoot common issues, becoming more efficient in using GitHub for their development work.\n"},{"_path":"/modules/github-the-basics/instructions","_dir":"github-the-basics","_draft":false,"_partial":false,"_locale":"","title":"Unit 1 Instructions","description":"","type":"reading","order":2,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"instructions"},"children":[{"type":"text","value":"Instructions"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"When it comes to GitHub there is plenty of online material which can help you to learn how to use GitHub starting from the official GitHub documentation "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"1"}]},{"type":"text","value":" or the GitHub learning Lab "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"2"}]},{"type":"text","value":" a bot which will take you through a series of practical projects to learn to complete Tutorial/courses for beginners "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"3"}]},{"type":"text","value":" "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"4"}]},{"type":"text","value":". "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"3"}]},{"type":"text","value":" is one 1-hour Crash Course for beginners, it explains the most GitHub commands you need to know about to start using GitHub (commit, add, push …) the course shows life demos of the GitHub commands covered in the courses. "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"4"}]},{"type":"text","value":" is very similar to "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"3"}]},{"type":"text","value":" but it is structured as a set of short videos covering various GitHub commands"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"To complete Unit 1, you are expected to:"}]}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Read/watch the suggested "},{"type":"element","tag":"a","props":{"href":"http://localhost:3000/internal-training/modules/Software-testing/teaching_material","rel":["nofollow"]},"children":[{"type":"text","value":"teaching material"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Please send the list of questions to your coach one day before the weekly meetings.."}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Time expected to complete this unit: "},{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"4 hours"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"instructions","depth":3,"text":"Instructions"}]}},"_type":"markdown","_id":"local_fs:modules:Github-the-basics:instructions.md","_source":"local_fs","_file":"modules/Github-the-basics/instructions.md","_extension":"md","plainText":"---\ntitle: Unit 1 Instructions \ntype: reading\norder: 2\n---\n\n### Instructions \n\nWhen it comes to GitHub there is plenty of online material which can help you to learn how to use GitHub starting from the official GitHub documentation [1] or the GitHub learning Lab [2] a bot which will take you through a series of practical projects to learn to complete Tutorial/courses for beginners [3] [4]. [3] is one 1-hour Crash Course for beginners, it explains the most GitHub commands you need to know about to start using GitHub (commit, add, push …) the course shows life demos of the GitHub commands covered in the courses. [4] is very similar to [3] but it is structured as a set of short videos covering various GitHub commands \n \n**To complete Unit 1, you are expected to:** \n\n - Read/watch the suggested [teaching material](http://localhost:3000/internal-training/modules/Software-testing/teaching_material) \n - Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach. \n - Please send the list of questions to your coach one day before the weekly meetings.. \n\nTime expected to complete this unit: **4 hours**\n"},{"_path":"/modules/github-the-basics/slides-github-the-basics","_dir":"github-the-basics","_draft":false,"_partial":false,"_locale":"","title":"GitHub the basics","description":"===","type":"slides","order":3,"body":{"type":"root","children":[{"type":"element","tag":"h1","props":{"id":"github-the-basics"},"children":[{"type":"text","value":"GitHub the basics"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"h2","props":{"id":"github-the-basics"},"children":[{"type":"text","value":"GitHub the basics "},{"type":"element","tag":"todo","props":{},"children":[]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"http://www.esciencecenter.nl","rel":["nofollow"]},"children":[{"type":"text","value":"www.esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"mailto:info@esciencecenter.nl"},"children":[{"type":"text","value":"info@esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"020 - 460 47 70"}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"github-the-basics","depth":2,"text":"GitHub the basics "}]}},"_type":"markdown","_id":"local_fs:modules:Github-the-basics:slides-github-the-basics.md","_source":"local_fs","_file":"modules/Github-the-basics/slides-github-the-basics.md","_extension":"md","plainText":"---\ntitle: GitHub the basics \ntype: slides\norder: 3\n---\n\n\n\n# GitHub the basics\n\n===\n\n\n\n## GitHub the basics \n \n\n===\n\n\n\nwww.esciencecenter.nl\n\ninfo@esciencecenter.nl\n \n020 - 460 47 70 \n"},{"_path":"/modules/github-the-basics/teaching_material","_dir":"github-the-basics","_draft":false,"_partial":false,"_locale":"","title":"Teaching Material","description":"","type":"exercise","order":3,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"teaching-material"},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Teaching Material"}]}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"GitHub online documentation: QuickStart "},{"type":"element","tag":"a","props":{"href":"https://docs.github.com/en/get-started/quickstart","rel":["nofollow"]},"children":[{"type":"text","value":"Online Documentation"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"GitHub Learning Lab "},{"type":"element","tag":"a","props":{"href":"ihttps://github.com/marketplace/github-learning-lab"},"children":[{"type":"text","value":"GitHub bot"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Git and GitHub for Beginners - Crash Course "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=RGOj5yH7evk","rel":["nofollow"]},"children":[{"type":"text","value":"Tutorial"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"it & GitHub Tutorial for Beginners #1 - Why Use Git? "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=3RjQznt-8kE&list=PL4cUxeGkcC9goXbgTDQ0n_4TBzOO0ocPR&index=2","rel":["nofollow"]},"children":[{"type":"text","value":"Tutorial"}]}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"teaching-material","depth":3,"text":"Teaching Material"}]}},"_type":"markdown","_id":"local_fs:modules:Github-the-basics:teaching_material.md","_source":"local_fs","_file":"modules/Github-the-basics/teaching_material.md","_extension":"md","plainText":"---\ntitle: Teaching Material \ntype: exercise\norder: 3\n---\n\n### **Teaching Material**\n\n- GitHub online documentation: QuickStart [Online Documentation](https://docs.github.com/en/get-started/quickstart)\n- GitHub Learning Lab [GitHub bot](ihttps://github.com/marketplace/github-learning-lab)\n- Git and GitHub for Beginners - Crash Course [Tutorial](https://www.youtube.com/watch?v=RGOj5yH7evk)\n- it & GitHub Tutorial for Beginners #1 - Why Use Git? [Tutorial](https://www.youtube.com/watch?v=3RjQznt-8kE&list=PL4cUxeGkcC9goXbgTDQ0n_4TBzOO0ocPR&index=2) \n"},{"_path":"/modules/human-aspects-of-software-engineering/context","_dir":"human-aspects-of-software-engineering","_draft":false,"_partial":false,"_locale":"","title":"Background unit 2","description":"","type":"reading","order":1,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"background"},"children":[{"type":"text","value":"Background"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Solving the technical aspects is not enough to build reliable, enduring, resilient software and systems. Human aspects are also vital to the successful completion of a software project. Human factors are nowadays part of mainstream software engineering education to elevate job satisfaction, improve performance, and increase productivity of software engineers. In Unit 2, we spend some time to reflect on these factors and their impact on the daily work of RSEs at the eScience center."}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"background","depth":3,"text":"Background"}]}},"_type":"markdown","_id":"local_fs:modules:Human-aspects-of-software-engineering:context.md","_source":"local_fs","_file":"modules/Human-aspects-of-software-engineering/context.md","_extension":"md","plainText":"---\ntitle: Background unit 2 \ntype: reading\norder: 1 \n---\n\n### Background \nSolving the technical aspects is not enough to build reliable, enduring, resilient software and systems. Human aspects are also vital to the successful completion of a software project. Human factors are nowadays part of mainstream software engineering education to elevate job satisfaction, improve performance, and increase productivity of software engineers. In Unit 2, we spend some time to reflect on these factors and their impact on the daily work of RSEs at the eScience center.\n"},{"_path":"/modules/human-aspects-of-software-engineering/further_reading","_dir":"human-aspects-of-software-engineering","_draft":false,"_partial":false,"_locale":"","title":"Further Reading","description":"","type":"reading","order":6,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"further-reading"},"children":[{"type":"text","value":"Further Reading"}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"further-reading","depth":3,"text":"Further Reading"}]}},"_type":"markdown","_id":"local_fs:modules:Human-aspects-of-software-engineering:further_reading.md","_source":"local_fs","_file":"modules/Human-aspects-of-software-engineering/further_reading.md","_extension":"md","plainText":"---\ntitle: Further Reading \ntype: reading\norder: 6\n---\n\n### Further Reading\n \n"},{"_path":"/modules/human-aspects-of-software-engineering","_dir":"modules","_draft":false,"_partial":false,"_locale":"","title":"Human aspects of Software Engineering","description":"Photo by TODO on Unsplash","category":"Module4","order":2,"author":"eScience Center","abstract":null,"thumbnail":"human-aspects-of-software-engineering.jpg","visibility":"visible","body":{"type":"root","children":[{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Photo by "},{"type":"element","tag":"a","props":{"href":""},"children":[{"type":"text","value":"TODO"}]},{"type":"text","value":" on 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objectives","description":"","type":"info","order":0,"body":{"type":"root","children":[{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Recognize the Impact of Human Factors on Software Development: Learners will be able to identify key human factors that influence the success of software projects, including communication, culture, and team dynamics, and understand how these factors affect both performance and productivity."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Address Conflicts and Culture Clashes in Software Teams: Learners will be able to recognize and address potential conflicts and culture clashes within software development teams, using strategies to minimize tension and foster a collaborative and productive working environment."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Enhance Personal Performance and Well-being in Software Engineering: Learners will be able to apply principles from Human Software Engineering to improve their own performance, manage stress, and optimize their working environment, ensuring long-term success and job satisfaction."}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:Human-aspects-of-software-engineering:info.md","_source":"local_fs","_file":"modules/Human-aspects-of-software-engineering/info.md","_extension":"md","plainText":"---\ntitle: Learning objectives\ntype: info\norder: 0\n---\n\n\n- Recognize the Impact of Human Factors on Software Development: Learners will be able to identify key human factors that influence the success of software projects, including communication, culture, and team dynamics, and understand how these factors affect both performance and productivity.\n\n- Address Conflicts and Culture Clashes in Software Teams: Learners will be able to recognize and address potential conflicts and culture clashes within software development teams, using strategies to minimize tension and foster a collaborative and productive working environment.\n\n- Enhance Personal Performance and Well-being in Software Engineering: Learners will be able to apply principles from Human Software Engineering to improve their own performance, manage stress, and optimize their working environment, ensuring long-term success and job satisfaction.\n"},{"_path":"/modules/human-aspects-of-software-engineering/instructions","_dir":"human-aspects-of-software-engineering","_draft":false,"_partial":false,"_locale":"","title":"Unit 2 Instructions","description":"","type":"reading","order":2,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"instructions"},"children":[{"type":"text","value":"Instructions"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"For Unit 2, we selected three references which highlight the human aspect of Software engineering and their impact on your research project. "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"1"}]},{"type":"text","value":" is talk given at The Lead Developer UK conference 2017, it explains potential conflicts that can arise during software development. Culture clashes can cause quite a bit of tension and frustration and could hamper the progress of the project. "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"2"}]},{"type":"text","value":" is a lecture on Human Software Engineering explains how to survive, optimize performance, and thrive in the modern working environment. "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"3"}]},{"type":"text","value":" is a podcast roundtable discussing the human factors that impact software engineering, from communication tools they use to the environment that they work."}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"To complete Unit 2, you are expected to:"}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Read/watch the suggested teaching material."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Please send the list of questions to your coach one day before."}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Important: the proposed material includes hands-on assignments. Do try them and if you encounter issues you cannot solve, do share them with your coach."}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Time expected to complete this unit: "},{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"4 hours"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"instructions","depth":3,"text":"Instructions"}]}},"_type":"markdown","_id":"local_fs:modules:Human-aspects-of-software-engineering:instructions.md","_source":"local_fs","_file":"modules/Human-aspects-of-software-engineering/instructions.md","_extension":"md","plainText":"---\ntitle: Unit 2 Instructions \ntype: reading\norder: 2\n---\n\n### Instructions \n\nFor Unit 2, we selected three references which highlight the human aspect of Software engineering and their impact on your research project. [1] is talk given at The Lead Developer UK conference 2017, it explains potential conflicts that can arise during software development. Culture clashes can cause quite a bit of tension and frustration and could hamper the progress of the project. [2] is a lecture on Human Software Engineering explains how to survive, optimize performance, and thrive in the modern working environment. [3] is a podcast roundtable discussing the human factors that impact software engineering, from communication tools they use to the environment that they work. \n\nTo complete Unit 2, you are expected to: \n\n - Read/watch the suggested teaching material. \n\n - Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach. \n\n - Please send the list of questions to your coach one day before. \n\nImportant: the proposed material includes hands-on assignments. Do try them and if you encounter issues you cannot solve, do share them with your coach. \n\nTime expected to complete this unit: **4 hours**\n"},{"_path":"/modules/human-aspects-of-software-engineering/slides-human-aspects-of-software-engineering","_dir":"human-aspects-of-software-engineering","_draft":false,"_partial":false,"_locale":"","title":"human aspects of software engineering","description":"===","type":"slides","order":3,"body":{"type":"root","children":[{"type":"element","tag":"h1","props":{"id":"human-aspects-of-software-engineering"},"children":[{"type":"text","value":"human aspects of software engineering"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"h2","props":{"id":"human-aspects-of-software-engineering"},"children":[{"type":"text","value":"human aspects of software engineering "},{"type":"element","tag":"todo","props":{},"children":[]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"http://www.esciencecenter.nl","rel":["nofollow"]},"children":[{"type":"text","value":"www.esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"mailto:info@esciencecenter.nl"},"children":[{"type":"text","value":"info@esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"020 - 460 47 70"}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"human-aspects-of-software-engineering","depth":2,"text":"human aspects of software engineering "}]}},"_type":"markdown","_id":"local_fs:modules:Human-aspects-of-software-engineering:slides-human-aspects-of-software-engineering.md","_source":"local_fs","_file":"modules/Human-aspects-of-software-engineering/slides-human-aspects-of-software-engineering.md","_extension":"md","plainText":"---\ntitle: human aspects of software engineering \ntype: slides\norder: 3\n---\n\n\n\n# human aspects of software engineering\n\n===\n\n\n\n## human aspects of software engineering \n \n\n===\n\n\n\nwww.esciencecenter.nl\n\ninfo@esciencecenter.nl\n \n020 - 460 47 70 \n"},{"_path":"/modules/human-aspects-of-software-engineering/teaching_material","_dir":"human-aspects-of-software-engineering","_draft":false,"_partial":false,"_locale":"","title":"Teaching Material","description":"","type":"exercise","order":5,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"teaching-material"},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Teaching Material"}]}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Cultural Differences Affect the Social Aspect of Software Engineering "},{"type":"element","tag":"a","props":{"href":"ihttps://youtu.be/FxTXf6qyaGk"},"children":[{"type":"text","value":"Conferenc"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Tom Stone - Human Software Engineering "},{"type":"element","tag":"a","props":{"href":"ihttps://www.youtube.com/watch?v=s70sOOZLoCI"},"children":[{"type":"text","value":"OnlineLecture"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Human Factors in Software Engineering, Carnegie Mellon University "},{"type":"element","tag":"a","props":{"href":"ihttps://www.youtube.com/watch?v=446cZSgSjTk"},"children":[{"type":"text","value":"Podcast"}]}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"teaching-material","depth":3,"text":"Teaching Material"}]}},"_type":"markdown","_id":"local_fs:modules:Human-aspects-of-software-engineering:teaching_material.md","_source":"local_fs","_file":"modules/Human-aspects-of-software-engineering/teaching_material.md","_extension":"md","plainText":"---\ntitle: Teaching Material \ntype: exercise\norder: 5\n---\n\n### **Teaching Material**\n\n- Cultural Differences Affect the Social Aspect of Software Engineering [Conferenc](ihttps://youtu.be/FxTXf6qyaGk)\n- Tom Stone - Human Software Engineering [OnlineLecture](ihttps://www.youtube.com/watch?v=s70sOOZLoCI)\n- Human Factors in Software Engineering, Carnegie Mellon University [Podcast](ihttps://www.youtube.com/watch?v=446cZSgSjTk) \n"},{"_path":"/modules/licensing/context","_dir":"licensing","_draft":false,"_partial":false,"_locale":"","title":"Background unit 5","description":"","type":"reading","order":1,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"background"},"children":[{"type":"text","value":"Background"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"While it is strongly suggested to use open-source libraries and frameworks, often open-source libraries and frameworks are distributed under licenses that are specifically designed to prevent certain type of usage for example using them in closed-source software. It is important to understand how different types of open-source and free software licenses work, and how you can use them in your research projects at the center. It is important to note here that the licensing policy of the center is to release all software under the Apache 2 license. In Unit 5 we look at what a few of the different licenses are, and how they work."}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"background","depth":3,"text":"Background"}]}},"_type":"markdown","_id":"local_fs:modules:Licensing:context.md","_source":"local_fs","_file":"modules/Licensing/context.md","_extension":"md","plainText":"---\ntitle: Background unit 5 \ntype: reading\norder: 1 \n---\n\n### Background \nWhile it is strongly suggested to use open-source libraries and frameworks, often open-source libraries and frameworks are distributed under licenses that are specifically designed to prevent certain type of usage for example using them in closed-source software. It is important to understand how different types of open-source and free software licenses work, and how you can use them in your research projects at the center. It is important to note here that the licensing policy of the center is to release all software under the Apache 2 license. In Unit 5 we look at what a few of the different licenses are, and how they work.\n"},{"_path":"/modules/licensing/further_reading","_dir":"licensing","_draft":false,"_partial":false,"_locale":"","title":"Further Reading","description":"","type":"reading","order":6,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"further-reading"},"children":[{"type":"text","value":"Further Reading"}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"further-reading","depth":3,"text":"Further Reading"}]}},"_type":"markdown","_id":"local_fs:modules:Licensing:further_reading.md","_source":"local_fs","_file":"modules/Licensing/further_reading.md","_extension":"md","plainText":"---\ntitle: Further Reading \ntype: reading\norder: 6\n---\n\n### Further Reading\n"},{"_path":"/modules/licensing","_dir":"modules","_draft":false,"_partial":false,"_locale":"","title":"Licensing","description":"Photo by TODO on Unsplash","category":"Module4","order":5,"author":"eScience Center","abstract":null,"thumbnail":"software-license.jpg","visibility":"visible","body":{"type":"root","children":[{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Photo by "},{"type":"element","tag":"a","props":{"href":""},"children":[{"type":"text","value":"TODO"}]},{"type":"text","value":" on "},{"type":"element","tag":"a","props":{"href":"https://csharp-station.com/Tutorial/CSharp/Lesson19"},"children":[{"type":"text","value":"Unsplash"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:Licensing:index.md","_source":"local_fs","_file":"modules/Licensing/index.md","_extension":"md","plainText":"---\ntitle: Licensing \ncategory: Module4\norder: 5 \nauthor: eScience Center\nabstract: \nthumbnail: \"software-license.jpg\"\nvisibility: visible\n---\n\n\nPhoto by TODO on Unsplash\n \n \n"},{"_path":"/modules/licensing/info","_dir":"licensing","_draft":false,"_partial":false,"_locale":"","title":"Learning objectives","description":"","type":"info","order":0,"body":{"type":"root","children":[{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Understand the Value and Impact of Open-Source Software Licenses: Learners will be able to describe the fundamental values of open-source software and explain how licensing can affect the usage, distribution, and contribution to projects."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Identify the Different Types of Open-Source Licenses: Learners will be able to distinguish between the three main types of open-source licenses, understand their key differences, and determine which license is appropriate for different types of projects.\nSelect the Appropriate License for Your Research Projects"}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Learners will be able to navigate through various licensing options and choose the most suitable open-source license, such as Apache 2, for their software based on project needs and center policies."}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:Licensing:info.md","_source":"local_fs","_file":"modules/Licensing/info.md","_extension":"md","plainText":"---\ntitle: Learning objectives\ntype: info\norder: 0\n---\n\n\n- Understand the Value and Impact of Open-Source Software Licenses: Learners will be able to describe the fundamental values of open-source software and explain how licensing can affect the usage, distribution, and contribution to projects.\n\n- Identify the Different Types of Open-Source Licenses: Learners will be able to distinguish between the three main types of open-source licenses, understand their key differences, and determine which license is appropriate for different types of projects.\nSelect the Appropriate License for Your Research Projects\n\n- Learners will be able to navigate through various licensing options and choose the most suitable open-source license, such as Apache 2, for their software based on project needs and center policies.\n"},{"_path":"/modules/licensing/instructions","_dir":"licensing","_draft":false,"_partial":false,"_locale":"","title":"Unit 5 Instructions","description":"","type":"reading","order":2,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"instructions"},"children":[{"type":"text","value":"Instructions"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"For Unit 5, we selected three references that can help learn about the most common open-source licenses and which one to choose for different situations. "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"1"}]},{"type":"text","value":" is presentation that walks through the values of creating open-source software and how to select which type of open-source license is right for your project. You will learn three fundamental lessons: (1) The value that open-source software provides to the world. (2) An understanding of the differences between the three (3) main types of open-source licenses available. (3) Steps to follow to select the right open-source license for your project. "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"2"}]},{"type":"text","value":" is an online document from the Open source's initiative, it will walk you through all the popular licenses. Finally "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"3"}]},{"type":"text","value":" will help you to choose the licenses depending on your situation."}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"It also is essential that you read the Netherlands eScience Center policy towards publishing, licensing and Intellectual Property, as well as our IP rules for eScience Center projects. You can find the general eScience Center policy towards publishing, licensing and intellectual property "},{"type":"element","tag":"a","props":{"href":"https://nlesc.sharepoint.com/qi/Shared%20Documents/Strategies,%20Plans%20%26%20Policies/eScience%20Center%20IP%20policy%20v1.1.pdf","rel":["nofollow"]},"children":[{"type":"text","value":"here"}]},{"type":"text","value":". For eScience Center projects, we have a more specific set of IP rules. They can be hound "},{"type":"element","tag":"a","props":{"href":"https://nlesc.sharepoint.com/qi/Shared%20Documents/Strategies,%20Plans%20%26%20Policies/eScience%20Center%20IP%20rules%20for%20projects%20v1.1.pdf","rel":["nofollow"]},"children":[{"type":"text","value":"here"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"To complete Unit 5, you are expected to:"}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Read/watch the suggested teaching material."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Please send the list of questions to your coach one day before."}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Important: the proposed material includes hands-on assignments. Do try them and if you encounter issues you cannot solve, do share them with your coach."}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Time expected to complete this unit: "},{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"4 hours"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"instructions","depth":3,"text":"Instructions"}]}},"_type":"markdown","_id":"local_fs:modules:Licensing:instructions.md","_source":"local_fs","_file":"modules/Licensing/instructions.md","_extension":"md","plainText":"---\ntitle: Unit 5 Instructions \ntype: reading\norder: 2\n---\n\n### Instructions \nFor Unit 5, we selected three references that can help learn about the most common open-source licenses and which one to choose for different situations. [1] is presentation that walks through the values of creating open-source software and how to select which type of open-source license is right for your project. You will learn three fundamental lessons: (1) The value that open-source software provides to the world. (2) An understanding of the differences between the three (3) main types of open-source licenses available. (3) Steps to follow to select the right open-source license for your project. [2] is an online document from the Open source's initiative, it will walk you through all the popular licenses. Finally [3] will help you to choose the licenses depending on your situation. \n \nIt also is essential that you read the Netherlands eScience Center policy towards publishing, licensing and Intellectual Property, as well as our IP rules for eScience Center projects. You can find the general eScience Center policy towards publishing, licensing and intellectual property [here](https://nlesc.sharepoint.com/qi/Shared%20Documents/Strategies,%20Plans%20%26%20Policies/eScience%20Center%20IP%20policy%20v1.1.pdf). For eScience Center projects, we have a more specific set of IP rules. They can be hound [here](https://nlesc.sharepoint.com/qi/Shared%20Documents/Strategies,%20Plans%20%26%20Policies/eScience%20Center%20IP%20rules%20for%20projects%20v1.1.pdf)\n\nTo complete Unit 5, you are expected to: \n\n - Read/watch the suggested teaching material. \n\n - Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach. \n\n - Please send the list of questions to your coach one day before. \n\nImportant: the proposed material includes hands-on assignments. Do try them and if you encounter issues you cannot solve, do share them with your coach. \n\nTime expected to complete this unit: **4 hours**\n"},{"_path":"/modules/licensing/slides-licensing","_dir":"licensing","_draft":false,"_partial":false,"_locale":"","title":"Licensing","description":"===","type":"slides","order":3,"body":{"type":"root","children":[{"type":"element","tag":"h1","props":{"id":"licensing"},"children":[{"type":"text","value":"Licensing"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"h2","props":{"id":"licensing"},"children":[{"type":"text","value":"Licensing "},{"type":"element","tag":"todo","props":{},"children":[]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"http://www.esciencecenter.nl","rel":["nofollow"]},"children":[{"type":"text","value":"www.esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"mailto:info@esciencecenter.nl"},"children":[{"type":"text","value":"info@esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"020 - 460 47 70"}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"licensing","depth":2,"text":"Licensing "}]}},"_type":"markdown","_id":"local_fs:modules:Licensing:slides-licensing.md","_source":"local_fs","_file":"modules/Licensing/slides-licensing.md","_extension":"md","plainText":"---\ntitle: Licensing \ntype: slides\norder: 3\n---\n\n\n\n# Licensing\n\n===\n\n\n\n## Licensing \n \n\n===\n\n\n\nwww.esciencecenter.nl\n\ninfo@esciencecenter.nl\n \n020 - 460 47 70 \n"},{"_path":"/modules/licensing/teaching_material","_dir":"licensing","_draft":false,"_partial":false,"_locale":"","title":"Teaching Material","description":"","type":"exercise","order":5,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"teaching-material"},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Teaching Material"}]}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"How to Choose an Open-Source License "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=OnmWFxlG2GA","rel":["nofollow"]},"children":[{"type":"text","value":"Talk@HackBeanpot 2018"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Open-Source Licenses "},{"type":"element","tag":"a","props":{"href":"https://opensource.org/licenses","rel":["nofollow"]},"children":[{"type":"text","value":"OnlineDoc"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Choose a license "},{"type":"element","tag":"a","props":{"href":"https://choosealicense.com/","rel":["nofollow"]},"children":[{"type":"text","value":"OnlineDoc "}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"eScience Center policy towards publishing, licensing and intellectual property "},{"type":"element","tag":"a","props":{"href":"https://nlesc.sharepoint.com/qi/Shared%20Documents/Strategies,%20Plans%20%26%20Policies/eScience%20Center%20IP%20policy%20v1.1.pdf","rel":["nofollow"]},"children":[{"type":"text","value":"QI"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"IP rules for eScience Center projects "},{"type":"element","tag":"a","props":{"href":"https://nlesc.sharepoint.com/qi/Shared%20Documents/Strategies,%20Plans%20%26%20Policies/eScience%20Center%20IP%20rules%20for%20projects%20v1.1.pdf","rel":["nofollow"]},"children":[{"type":"text","value":"QI"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"The turing way Licensing-software"},{"type":"element","tag":"a","props":{"href":"https://the-turing-way.netlify.app/reproducible-research/licensing/licensing-software.html","rel":["nofollow"]},"children":[{"type":"text","value":"onlineDoc"}]}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"teaching-material","depth":3,"text":"Teaching Material"}]}},"_type":"markdown","_id":"local_fs:modules:Licensing:teaching_material.md","_source":"local_fs","_file":"modules/Licensing/teaching_material.md","_extension":"md","plainText":"---\ntitle: Teaching Material \ntype: exercise\norder: 5\n---\n\n### **Teaching Material**\n\n- How to Choose an Open-Source License [Talk@HackBeanpot 2018](https://www.youtube.com/watch?v=OnmWFxlG2GA)\n- Open-Source Licenses [OnlineDoc](https://opensource.org/licenses)\n- Choose a license [OnlineDoc ](https://choosealicense.com/)\n- eScience Center policy towards publishing, licensing and intellectual property [QI](https://nlesc.sharepoint.com/qi/Shared%20Documents/Strategies,%20Plans%20%26%20Policies/eScience%20Center%20IP%20policy%20v1.1.pdf)\n- IP rules for eScience Center projects [QI](https://nlesc.sharepoint.com/qi/Shared%20Documents/Strategies,%20Plans%20%26%20Policies/eScience%20Center%20IP%20rules%20for%20projects%20v1.1.pdf)\n- The turing way Licensing-software[onlineDoc](https://the-turing-way.netlify.app/reproducible-research/licensing/licensing-software.html) \n"},{"_path":"/modules/modularity/context","_dir":"modularity","_draft":false,"_partial":false,"_locale":"","title":"Background unit 1","description":"","type":"reading","order":1,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"background"},"children":[{"type":"text","value":"Background"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Modular programming originated back in the 1960s when developers began breaking up larger software programs into smaller parts. Although this concept has been around for six decades, it is still extremely relevant and useful for today’s software developers, and one of the key programming principles. At the eScience center, we really encourage modularity in all our software development projects as it helps the center to increase re-usability across projects and cross scientific disciplines, which is a key to the eScience domain as a whole."}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"background","depth":3,"text":"Background"}]}},"_type":"markdown","_id":"local_fs:modules:Modularity:context.md","_source":"local_fs","_file":"modules/Modularity/context.md","_extension":"md","plainText":"---\ntitle: Background unit 1 \ntype: reading\norder: 1\n---\n\n### Background \nModular programming originated back in the 1960s when developers began breaking up larger software programs into smaller parts. Although this concept has been around for six decades, it is still extremely relevant and useful for today’s software developers, and one of the key programming principles. At the eScience center, we really encourage modularity in all our software development projects as it helps the center to increase re-usability across projects and cross scientific disciplines, which is a key to the eScience domain as a whole. \n"},{"_path":"/modules/modularity/further_reading","_dir":"modularity","_draft":false,"_partial":false,"_locale":"","title":"Further Reading","description":"","type":"reading","order":5,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"further-reading"},"children":[{"type":"text","value":"Further Reading"}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Modularity in Software: A Retrospective by Dean Wampler: "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=yMc6s7qT988","rel":["nofollow"]},"children":[{"type":"text","value":"conferenceTalk"}]}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"further-reading","depth":3,"text":"Further Reading"}]}},"_type":"markdown","_id":"local_fs:modules:Modularity:further_reading.md","_source":"local_fs","_file":"modules/Modularity/further_reading.md","_extension":"md","plainText":"---\ntitle: Further Reading \ntype: reading\norder: 5\n---\n\n### Further Reading\n\n - Modularity in Software: A Retrospective by Dean Wampler: [conferenceTalk](https://www.youtube.com/watch?v=yMc6s7qT988)\n"},{"_path":"/modules/modularity","_dir":"modules","_draft":false,"_partial":false,"_locale":"","title":"Software Modularity","description":"Photo by TODO on Unsplash","category":"Module2","order":1,"author":"eScience Center","abstract":null,"thumbnail":"Modularity-in-Software-Engineering.png","visibility":"visible","body":{"type":"root","children":[{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Photo by "},{"type":"element","tag":"a","props":{"href":""},"children":[{"type":"text","value":"TODO"}]},{"type":"text","value":" on "},{"type":"element","tag":"a","props":{"href":"https://csharp-station.com/Tutorial/CSharp/Lesson19"},"children":[{"type":"text","value":"Unsplash"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:Modularity:index.md","_source":"local_fs","_file":"modules/Modularity/index.md","_extension":"md","plainText":"---\ntitle: Software Modularity\ncategory: Module2\norder: 1 \nauthor: eScience Center\nabstract: \nthumbnail: \"Modularity-in-Software-Engineering.png\"\nvisibility: visible\n---\n\n\nPhoto by TODO on Unsplash\n \n \n"},{"_path":"/modules/modularity/info","_dir":"modularity","_draft":false,"_partial":false,"_locale":"","title":"Learning objectives","description":"","type":"info","order":0,"body":{"type":"root","children":[{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"after completing Unit 1 you will have learned\n"},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"the basics of reproducible research"}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"the basics of project design"}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"some important eScience best practices."}]}]}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Note"}]},{"type":"text","value":": Unit 1 does not involve practical hands-on; after completing Unit 1 you will have learned some of basics of modular programming and you should be able to apply the principle you have learned in this unit in your research projects."}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:Modularity:info.md","_source":"local_fs","_file":"modules/Modularity/info.md","_extension":"md","plainText":"---\ntitle: Learning objectives\ntype: info\norder: 0\n---\n- after completing Unit 1 you will have learned \n - the basics of reproducible research \n - the basics of project design \n - some important eScience best practices. \n\n **Note**: Unit 1 does not involve practical hands-on; after completing Unit 1 you will have learned some of basics of modular programming and you should be able to apply the principle you have learned in this unit in your research projects. \n\n"},{"_path":"/modules/modularity/instructions","_dir":"modularity","_draft":false,"_partial":false,"_locale":"","title":"Unit 1 Instructions","description":"","type":"reading","order":2,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"instructions"},"children":[{"type":"text","value":"Instructions"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"For Unit 1, we selected a couple of references which will help you to develop a good understanding of the principles of modular design. "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"1"}]},{"type":"text","value":" is a talk published by Oracle learning and gives a good overview of software modularity and architectures. "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"2"}]},{"type":"text","value":" is the first lecture of course at University of Verginia, it explains many concepts on modular design what are the qualities of good modules, metrics of module quality-cohesion and coupling. "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"3"}]},{"type":"text","value":" is a retrospective talk on the modularity theme, it includes a brief history of software modularity since its introduction, why it is useful and the good and the bad of modularity over its evolution. "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"3"}]},{"type":"text","value":" is proposed as a further reading (extra-material) for RSE who want to reflect deeper on the software modularity. Similarly, reference "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"4"}]},{"type":"text","value":" is extra-material focusing on Cohesion and coupling in python."}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"To complete Unit 1, you are expected to:"}]}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Read/watch the suggested "},{"type":"element","tag":"a","props":{"href":"http://localhost:3000/internal-training/modules/Modularity/teaching_material","rel":["nofollow"]},"children":[{"type":"text","value":"teaching material"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Please send the list of questions to your coach one day before the weekly meetings.."}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Time expected to complete this unit: "},{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"4 hours"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"instructions","depth":3,"text":"Instructions"}]}},"_type":"markdown","_id":"local_fs:modules:Modularity:instructions.md","_source":"local_fs","_file":"modules/Modularity/instructions.md","_extension":"md","plainText":"---\ntitle: Unit 1 Instructions \ntype: reading\norder: 2\n---\n\n### Instructions \n\nFor Unit 1, we selected a couple of references which will help you to develop a good understanding of the principles of modular design. [1] is a talk published by Oracle learning and gives a good overview of software modularity and architectures. [2] is the first lecture of course at University of Verginia, it explains many concepts on modular design what are the qualities of good modules, metrics of module quality-cohesion and coupling. [3] is a retrospective talk on the modularity theme, it includes a brief history of software modularity since its introduction, why it is useful and the good and the bad of modularity over its evolution. [3] is proposed as a further reading (extra-material) for RSE who want to reflect deeper on the software modularity. Similarly, reference [4] is extra-material focusing on Cohesion and coupling in python. \n\n**To complete Unit 1, you are expected to:** \n\n - Read/watch the suggested [teaching material](http://localhost:3000/internal-training/modules/Modularity/teaching_material) \n - Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach. \n - Please send the list of questions to your coach one day before the weekly meetings.. \n\nTime expected to complete this unit: **4 hours**\n"},{"_path":"/modules/modularity/slides-modularity","_dir":"modularity","_draft":false,"_partial":false,"_locale":"","title":"Software Modularity","description":"===","type":"slides","order":3,"body":{"type":"root","children":[{"type":"element","tag":"h1","props":{"id":"software-modularity"},"children":[{"type":"text","value":"Software Modularity"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"h2","props":{"id":"software-modularity"},"children":[{"type":"text","value":"Software Modularity "},{"type":"element","tag":"todo","props":{},"children":[]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"http://www.esciencecenter.nl","rel":["nofollow"]},"children":[{"type":"text","value":"www.esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"mailto:info@esciencecenter.nl"},"children":[{"type":"text","value":"info@esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"020 - 460 47 70"}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"software-modularity","depth":2,"text":"Software Modularity "}]}},"_type":"markdown","_id":"local_fs:modules:Modularity:slides-modularity.md","_source":"local_fs","_file":"modules/Modularity/slides-modularity.md","_extension":"md","plainText":"---\ntitle: Software Modularity \ntype: slides\norder: 3\n---\n\n\n\n# Software Modularity\n\n===\n\n\n\n## Software Modularity \n \n\n===\n\n\n\nwww.esciencecenter.nl\n\ninfo@esciencecenter.nl\n \n020 - 460 47 70 \n"},{"_path":"/modules/modularity/teaching_material","_dir":"modularity","_draft":false,"_partial":false,"_locale":"","title":"Teaching Material","description":"","type":"exercise","order":3,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"teaching-material"},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Teaching Material"}]}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Software Modularity: Paradoxes, Principles, and Architectures "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=D37sb08SodU","rel":["nofollow"]},"children":[{"type":"text","value":"conferenceTalk"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Modularity lecture university of Virginia "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=Q76mO3eI4qE","rel":["nofollow"]},"children":[{"type":"text","value":"online Lecture"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Cohesion and coupling: write BETTER PYTHON CODE ["},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=eiDyK_ofPPM","rel":["nofollow"]},"children":[{"type":"text","value":"Part 1"}]},{"type":"text","value":", "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=Kv5jhbSkqLE","rel":["nofollow"]},"children":[{"type":"text","value":"Part 2"}]},{"type":"text","value":"]"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"teaching-material","depth":3,"text":"Teaching Material"}]}},"_type":"markdown","_id":"local_fs:modules:Modularity:teaching_material.md","_source":"local_fs","_file":"modules/Modularity/teaching_material.md","_extension":"md","plainText":"---\ntitle: Teaching Material \ntype: exercise\norder: 3\n---\n\n### **Teaching Material**\n\n- Software Modularity: Paradoxes, Principles, and Architectures [conferenceTalk](https://www.youtube.com/watch?v=D37sb08SodU)\n- Modularity lecture university of Virginia [online Lecture](https://www.youtube.com/watch?v=Q76mO3eI4qE)\n- Cohesion and coupling: write BETTER PYTHON CODE [[Part 1](https://www.youtube.com/watch?v=eiDyK_ofPPM), [Part 2](https://www.youtube.com/watch?v=Kv5jhbSkqLE)] \n"},{"_path":"/modules/notebooks-and-literate-programming/context","_dir":"notebooks-and-literate-programming","_draft":false,"_partial":false,"_locale":"","title":"Background unit 4","description":"","type":"reading","order":1,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"background"},"children":[{"type":"text","value":"Background"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"It seems obvious, but code is not only written for machines: it is written for people, too. Overlooking this fact can cause problems. Literate programming is an approach to programming in which the code is explained using natural language alongside the source code. This is distinct from related practices such as documentation or code comments; there, the code is primary, with commentary and explanation being secondary. In literate programming, however, explanation has equal billing with the code itself. A “notebook” environment is one genre of literate programming tools that is supported by many data-centric literate programming tools such as Jupyter Notebooks, Mathematica, Databricks, Apache Zeppelin, and Sage Notebooks."}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"background","depth":3,"text":"Background"}]}},"_type":"markdown","_id":"local_fs:modules:Notebooks-and-literate-programming:context.md","_source":"local_fs","_file":"modules/Notebooks-and-literate-programming/context.md","_extension":"md","plainText":"---\ntitle: Background unit 4 \ntype: reading\norder: 1\n---\n\n### Background \nIt seems obvious, but code is not only written for machines: it is written for people, too. Overlooking this fact can cause problems. Literate programming is an approach to programming in which the code is explained using natural language alongside the source code. This is distinct from related practices such as documentation or code comments; there, the code is primary, with commentary and explanation being secondary. In literate programming, however, explanation has equal billing with the code itself. A “notebook” environment is one genre of literate programming tools that is supported by many data-centric literate programming tools such as Jupyter Notebooks, Mathematica, Databricks, Apache Zeppelin, and Sage Notebooks.\n"},{"_path":"/modules/notebooks-and-literate-programming/further_reading","_dir":"notebooks-and-literate-programming","_draft":false,"_partial":false,"_locale":"","title":"Further Reading","description":"","type":"reading","order":5,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"further-reading"},"children":[{"type":"text","value":"Further Reading"}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Modularity in Software: A Retrospective by Dean Wampler: "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"conferenceTalk"}]},{"type":"text","value":" ("},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=yMc6s7qT988","rel":["nofollow"]},"children":[{"type":"text","value":"https://www.youtube.com/watch?v=yMc6s7qT988"}]},{"type":"text","value":")"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"further-reading","depth":3,"text":"Further Reading"}]}},"_type":"markdown","_id":"local_fs:modules:Notebooks-and-literate-programming:further_reading.md","_source":"local_fs","_file":"modules/Notebooks-and-literate-programming/further_reading.md","_extension":"md","plainText":"---\ntitle: Further Reading \ntype: reading\norder: 5\n---\n\n### Further Reading\n\n - Modularity in Software: A Retrospective by Dean Wampler: [conferenceTalk] (https://www.youtube.com/watch?v=yMc6s7qT988)\n"},{"_path":"/modules/notebooks-and-literate-programming","_dir":"modules","_draft":false,"_partial":false,"_locale":"","title":"Notebooks & literate programming","description":"Photo by TODO on Unsplash","category":"Module2","order":4,"author":"eScience Center","abstract":null,"thumbnail":"literate-programming.jpeg","visibility":"visible","body":{"type":"root","children":[{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Photo by "},{"type":"element","tag":"a","props":{"href":""},"children":[{"type":"text","value":"TODO"}]},{"type":"text","value":" on "},{"type":"element","tag":"a","props":{"href":"https://csharp-station.com/Tutorial/CSharp/Lesson19"},"children":[{"type":"text","value":"Unsplash"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:Notebooks-and-literate-programming:index.md","_source":"local_fs","_file":"modules/Notebooks-and-literate-programming/index.md","_extension":"md","plainText":"---\ntitle: Notebooks & literate programming\ncategory: Module2\norder: 4\nauthor: eScience Center\nabstract: \nthumbnail: \"literate-programming.jpeg\"\nvisibility: visible\n---\n\n\nPhoto by TODO on Unsplash\n \n \n"},{"_path":"/modules/notebooks-and-literate-programming/info","_dir":"notebooks-and-literate-programming","_draft":false,"_partial":false,"_locale":"","title":"Learning objectives","description":"","type":"info","order":0,"body":{"type":"root","children":[{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Understand the Concept of Literate Programming: Learners will be able to explain the principles of literate programming, including how it differs from traditional code documentation, and articulate its importance in making code more understandable for humans."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Appreciate the Role of Notebooks in Data-Centric Workflows: Learners will be able to describe the advantages of using notebook environments like Jupyter Notebooks, Mathematica, and Apache Zeppelin for combining code with explanatory narratives in data science workflows."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Adopt a Literate Programming Mindset: Learners will be able to integrate literate programming techniques into their coding practice, focusing on balancing natural language explanations with source code, inspired by Donald Knuth’s and other talks on the subject."}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:Notebooks-and-literate-programming:info.md","_source":"local_fs","_file":"modules/Notebooks-and-literate-programming/info.md","_extension":"md","plainText":"---\ntitle: Learning objectives\ntype: info\norder: 0\n---\n\n- Understand the Concept of Literate Programming: Learners will be able to explain the principles of literate programming, including how it differs from traditional code documentation, and articulate its importance in making code more understandable for humans.\n\n- Appreciate the Role of Notebooks in Data-Centric Workflows: Learners will be able to describe the advantages of using notebook environments like Jupyter Notebooks, Mathematica, and Apache Zeppelin for combining code with explanatory narratives in data science workflows.\n\n- Adopt a Literate Programming Mindset: Learners will be able to integrate literate programming techniques into their coding practice, focusing on balancing natural language explanations with source code, inspired by Donald Knuth’s and other talks on the subject.\n"},{"_path":"/modules/notebooks-and-literate-programming/instructions","_dir":"notebooks-and-literate-programming","_draft":false,"_partial":false,"_locale":"","title":"Unit 4 Instructions","description":"","type":"reading","order":2,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"instruction"},"children":[{"type":"text","value":"Instruction"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"For Unit 4, we selected a couple of references which will help to motivate you to see the importance of literate programming and Notebooks. "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"1"}]},{"type":"text","value":" is a very short video of Donald Knuth about the importance of Literature programming. "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"2"}]},{"type":"text","value":" is a longer talk which stresses further the importance of literate programming and promotes a mind shift from documenting code to writing a book. The last reference is focused on the usage of notebooks in Data Science."}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"To complete Unit 4, you are expected to:"}]}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Read/watch the suggested "},{"type":"element","tag":"a","props":{"href":"http://localhost:3000/internal-training/readability-and-code-formatting/teaching_material","rel":["nofollow"]},"children":[{"type":"text","value":"teaching material"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Please send the list of questions to your coach one day before the weekly meetings.."}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Time expected to complete this unit: "},{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"4 hours"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"instruction","depth":3,"text":"Instruction"}]}},"_type":"markdown","_id":"local_fs:modules:Notebooks-and-literate-programming:instructions.md","_source":"local_fs","_file":"modules/Notebooks-and-literate-programming/instructions.md","_extension":"md","plainText":"---\ntitle: Unit 4 Instructions \ntype: reading\norder: 2\n---\n\n### Instruction\n\nFor Unit 4, we selected a couple of references which will help to motivate you to see the importance of literate programming and Notebooks. [1] is a very short video of Donald Knuth about the importance of Literature programming. [2] is a longer talk which stresses further the importance of literate programming and promotes a mind shift from documenting code to writing a book. The last reference is focused on the usage of notebooks in Data Science. \n \n**To complete Unit 4, you are expected to:** \n\n - Read/watch the suggested [teaching material](http://localhost:3000/internal-training/readability-and-code-formatting/teaching_material) \n - Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach. \n - Please send the list of questions to your coach one day before the weekly meetings.. \n\nTime expected to complete this unit: **4 hours**\n"},{"_path":"/modules/notebooks-and-literate-programming/slides-notebooks-and-literate-programming","_dir":"notebooks-and-literate-programming","_draft":false,"_partial":false,"_locale":"","title":"notebooks-and-literate-programming","description":"===","type":"slides","order":3,"body":{"type":"root","children":[{"type":"element","tag":"h1","props":{"id":"notebooks-and-literate-programming"},"children":[{"type":"text","value":"notebooks-and-literate-programming"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"h2","props":{"id":"notebooks-and-literate-programming"},"children":[{"type":"text","value":"notebooks-and-literate-programming "},{"type":"element","tag":"todo","props":{},"children":[]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"http://www.esciencecenter.nl","rel":["nofollow"]},"children":[{"type":"text","value":"www.esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"mailto:info@esciencecenter.nl"},"children":[{"type":"text","value":"info@esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"020 - 460 47 70"}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"notebooks-and-literate-programming","depth":2,"text":"notebooks-and-literate-programming "}]}},"_type":"markdown","_id":"local_fs:modules:Notebooks-and-literate-programming:slides-notebooks-and-literate-programming.md","_source":"local_fs","_file":"modules/Notebooks-and-literate-programming/slides-notebooks-and-literate-programming.md","_extension":"md","plainText":"---\ntitle: notebooks-and-literate-programming \ntype: slides\norder: 3\n---\n\n\n\n# notebooks-and-literate-programming\n\n===\n\n\n\n## notebooks-and-literate-programming \n \n\n===\n\n\n\nwww.esciencecenter.nl\n\ninfo@esciencecenter.nl\n \n020 - 460 47 70 \n"},{"_path":"/modules/notebooks-and-literate-programming/teaching_material","_dir":"notebooks-and-literate-programming","_draft":false,"_partial":false,"_locale":"","title":"Teaching Material","description":"","type":"exercise","order":3,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"teaching-material"},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Teaching Material"}]}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Donald Knuth - Literate programming "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=bTkXg2LZIMQ","rel":["nofollow"]},"children":[{"type":"text","value":"origine"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Literate Programming in the Large "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=Av0PQDVTP4A","rel":["nofollow"]},"children":[{"type":"text","value":"Keynote"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"iStory in the Notebook: Data Science using Literate Programming …"},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=bmLUcnu1Qi8","rel":["nofollow"]},"children":[{"type":"text","value":"conferenceTalk"}]},{"type":"text","value":", "},{"type":"element","tag":"a","props":{"href":"https://dl.acm.org/doi/pdf/10.1145/3173574.3173748","rel":["nofollow"]},"children":[{"type":"text","value":"paper"}]}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"teaching-material","depth":3,"text":"Teaching Material"}]}},"_type":"markdown","_id":"local_fs:modules:Notebooks-and-literate-programming:teaching_material.md","_source":"local_fs","_file":"modules/Notebooks-and-literate-programming/teaching_material.md","_extension":"md","plainText":"---\ntitle: Teaching Material \ntype: exercise\norder: 3\n---\n\n### **Teaching Material**\n\n- Donald Knuth - Literate programming [origine](https://www.youtube.com/watch?v=bTkXg2LZIMQ)\n- Literate Programming in the Large [Keynote](https://www.youtube.com/watch?v=Av0PQDVTP4A)\n- iStory in the Notebook: Data Science using Literate Programming …[conferenceTalk](https://www.youtube.com/watch?v=bmLUcnu1Qi8), [paper](https://dl.acm.org/doi/pdf/10.1145/3173574.3173748)\n"},{"_path":"/modules/open-science-and-reproducible-research/context","_dir":"open-science-and-reproducible-research","_draft":false,"_partial":false,"_locale":"","title":"Background unit 3","description":"","type":"reading","order":1,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"background"},"children":[{"type":"text","value":"Background"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Reproducibility of research requires that research data and code be made available so that others can reach the results published in scientific outputs. Improving reproducibility leads to increased rigour and quality of scientific outputs, and thus to greater trust in science. There has been a growing need and willingness to expose research workflows lifecycle from initiation of a project and data collection right through to the interpretation and reporting of results. These developments have come with their own sets of challenges, including designing integrated research workflows that can be adopted by collaborators while maintaining high standards of integrity."}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"background","depth":3,"text":"Background"}]}},"_type":"markdown","_id":"local_fs:modules:Open-science-and-reproducible-research:context.md","_source":"local_fs","_file":"modules/Open-science-and-reproducible-research/context.md","_extension":"md","plainText":"---\ntitle: Background unit 3 \ntype: reading\norder: 1 \n---\n\n### Background \nReproducibility of research requires that research data and code be made available so that others can reach the results published in scientific outputs. Improving reproducibility leads to increased rigour and quality of scientific outputs, and thus to greater trust in science. There has been a growing need and willingness to expose research workflows lifecycle from initiation of a project and data collection right through to the interpretation and reporting of results. These developments have come with their own sets of challenges, including designing integrated research workflows that can be adopted by collaborators while maintaining high standards of integrity.\n"},{"_path":"/modules/open-science-and-reproducible-research/further_reading","_dir":"open-science-and-reproducible-research","_draft":false,"_partial":false,"_locale":"","title":"Further Reading","description":"","type":"reading","order":6,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"further-reading"},"children":[{"type":"text","value":"Further Reading"}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"further-reading","depth":3,"text":"Further Reading"}]}},"_type":"markdown","_id":"local_fs:modules:Open-science-and-reproducible-research:further_reading.md","_source":"local_fs","_file":"modules/Open-science-and-reproducible-research/further_reading.md","_extension":"md","plainText":"---\ntitle: Further Reading \ntype: reading\norder: 6\n---\n\n### Further Reading\n"},{"_path":"/modules/open-science-and-reproducible-research","_dir":"modules","_draft":false,"_partial":false,"_locale":"","title":"Open Science and Reproducible Research","description":"Photo by TODO on Unsplash","category":"Module4","order":3,"author":"eScience Center","abstract":null,"thumbnail":"UNESCO-Open_science-pillars-en.png","visibility":"visible","body":{"type":"root","children":[{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Photo by "},{"type":"element","tag":"a","props":{"href":""},"children":[{"type":"text","value":"TODO"}]},{"type":"text","value":" on "},{"type":"element","tag":"a","props":{"href":"https://csharp-station.com/Tutorial/CSharp/Lesson19"},"children":[{"type":"text","value":"Unsplash"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:Open-science-and-reproducible-research:index.md","_source":"local_fs","_file":"modules/Open-science-and-reproducible-research/index.md","_extension":"md","plainText":"---\ntitle: Open Science and Reproducible Research \ncategory: Module4\norder: 3 \nauthor: eScience Center\nabstract: \nthumbnail: \"UNESCO-Open_science-pillars-en.png\"\nvisibility: visible\n---\n\n\nPhoto by TODO on Unsplash\n \n \n"},{"_path":"/modules/open-science-and-reproducible-research/info","_dir":"open-science-and-reproducible-research","_draft":false,"_partial":false,"_locale":"","title":"Learning objectives","description":"","type":"info","order":0,"body":{"type":"root","children":[{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Understand the Importance of Reproducibility in Research: Learners will be able to explain the role of reproducibility in enhancing the rigor, transparency, and trustworthiness of scientific research, and the importance of making research data and code accessible for others to validate and replicate results."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Explore Open Science Practices for Research Workflows: Learners will be able to describe key principles of Open Science and how they can be applied to design and share integrated research workflows, ensuring that research practices are transparent, accessible, and reproducible."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Contribute to Open-Source Projects and Research Communities"},{"type":"element","tag":"div","props":{},"children":[]},{"type":"text","value":" will be able to engage with open-source research communities, identifying opportunities for contribution and applying best practices to contribute meaningfully while maintaining high standards of integrity and collaboration."},{"type":"element","tag":"br","props":{},"children":[]}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:Open-science-and-reproducible-research:info.md","_source":"local_fs","_file":"modules/Open-science-and-reproducible-research/info.md","_extension":"md","plainText":"---\ntitle: Learning objectives\ntype: info\norder: 0\n---\n\n- Understand the Importance of Reproducibility in Research: Learners will be able to explain the role of reproducibility in enhancing the rigor, transparency, and trustworthiness of scientific research, and the importance of making research data and code accessible for others to validate and replicate results.\n\n- Explore Open Science Practices for Research Workflows: Learners will be able to describe key principles of Open Science and how they can be applied to design and share integrated research workflows, ensuring that research practices are transparent, accessible, and reproducible.\n\n- Contribute to Open-Source Projects and Research Communities:Learners will be able to engage with open-source research communities, identifying opportunities for contribution and applying best practices to contribute meaningfully while maintaining high standards of integrity and collaboration.\n"},{"_path":"/modules/open-science-and-reproducible-research/instructions","_dir":"open-science-and-reproducible-research","_draft":false,"_partial":false,"_locale":"","title":"Unit 3 Instructions","description":"","type":"reading","order":2,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"instructions"},"children":[{"type":"text","value":"Instructions"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"For Unit 3, we selected three references which cover two important topics at the center: Open Science and reproducible research. "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"3"}]},{"type":"text","value":" is talk where the speaker shares her experience with contributing to Cucumber, including making an early mistake (merging something that was not ready yet) and fixing it with the support of core maintainers, and still feeling welcome. You will learn how to find your project and contributions to start with, how to connect with the community to make sure your contributions are useful, and the many diverse types of contributions you can make."}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"To complete Unit 3, you are expected to:"}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Read/watch the suggested teaching material."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Please send the list of questions to your coach one day before."}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Important: the proposed material includes hands-on assignments. Do try them and if you encounter issues you cannot solve, do share them with your coach."}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Time expected to complete this unit: "},{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"4 hours"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"instructions","depth":3,"text":"Instructions"}]}},"_type":"markdown","_id":"local_fs:modules:Open-science-and-reproducible-research:instructions.md","_source":"local_fs","_file":"modules/Open-science-and-reproducible-research/instructions.md","_extension":"md","plainText":"---\ntitle: Unit 3 Instructions \ntype: reading\norder: 2\n---\n\n### Instructions \nFor Unit 3, we selected three references which cover two important topics at the center: Open Science and reproducible research. [3] is talk where the speaker shares her experience with contributing to Cucumber, including making an early mistake (merging something that was not ready yet) and fixing it with the support of core maintainers, and still feeling welcome. You will learn how to find your project and contributions to start with, how to connect with the community to make sure your contributions are useful, and the many diverse types of contributions you can make. \n\n\nTo complete Unit 3, you are expected to: \n\n - Read/watch the suggested teaching material. \n\n - Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach. \n\n - Please send the list of questions to your coach one day before. \n\nImportant: the proposed material includes hands-on assignments. Do try them and if you encounter issues you cannot solve, do share them with your coach. \n\nTime expected to complete this unit: **4 hours**\n"},{"_path":"/modules/open-science-and-reproducible-research/slides-open-science-and-reproducible-research","_dir":"open-science-and-reproducible-research","_draft":false,"_partial":false,"_locale":"","title":"Open Science and Reproducible Research","description":"===","type":"slides","order":3,"body":{"type":"root","children":[{"type":"element","tag":"h1","props":{"id":"open-science-and-reproducible-research"},"children":[{"type":"text","value":"Open Science and Reproducible Research"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"h2","props":{"id":"open-science-and-reproducible-research"},"children":[{"type":"text","value":"Open Science and Reproducible Research "},{"type":"element","tag":"todo","props":{},"children":[]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"http://www.esciencecenter.nl","rel":["nofollow"]},"children":[{"type":"text","value":"www.esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"mailto:info@esciencecenter.nl"},"children":[{"type":"text","value":"info@esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"020 - 460 47 70"}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"open-science-and-reproducible-research","depth":2,"text":"Open Science and Reproducible Research "}]}},"_type":"markdown","_id":"local_fs:modules:Open-science-and-reproducible-research:slides-open-science-and-reproducible-research.md","_source":"local_fs","_file":"modules/Open-science-and-reproducible-research/slides-open-science-and-reproducible-research.md","_extension":"md","plainText":"---\ntitle: Open Science and Reproducible Research \ntype: slides\norder: 3\n---\n\n\n\n# Open Science and Reproducible Research\n\n===\n\n\n\n## Open Science and Reproducible Research \n \n\n===\n\n\n\nwww.esciencecenter.nl\n\ninfo@esciencecenter.nl\n \n020 - 460 47 70 \n"},{"_path":"/modules/open-science-and-reproducible-research/teaching_material","_dir":"open-science-and-reproducible-research","_draft":false,"_partial":false,"_locale":"","title":"Teaching Material","description":"","type":"exercise","order":5,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"teaching-material"},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Teaching Material"}]}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Open Science and Reproducible Research "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=KE9jsXxI6No","rel":["nofollow"]},"children":[{"type":"text","value":"OnlineTalk"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"An Introduction to Reproducible Research Practices "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=VjDM-XsoHUQ","rel":["nofollow"]},"children":[{"type":"text","value":"WorkshopTalk"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"WHAT IS OPEN SCIENCE? | An introduction series to open science "},{"type":"element","tag":"a","props":{"href":"ihttps://www.youtube.com/watch?v=mVCDkhxxUgg"},"children":[{"type":"text","value":"Webinar"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Reproducibility and Open Science "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=VjDM-XsoHUQ","rel":["nofollow"]},"children":[{"type":"text","value":"OnlineTalk"}]}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"teaching-material","depth":3,"text":"Teaching Material"}]}},"_type":"markdown","_id":"local_fs:modules:Open-science-and-reproducible-research:teaching_material.md","_source":"local_fs","_file":"modules/Open-science-and-reproducible-research/teaching_material.md","_extension":"md","plainText":"---\ntitle: Teaching Material \ntype: exercise\norder: 5\n---\n\n### **Teaching Material**\n\n- Open Science and Reproducible Research [OnlineTalk](https://www.youtube.com/watch?v=KE9jsXxI6No)\n- An Introduction to Reproducible Research Practices [WorkshopTalk](https://www.youtube.com/watch?v=VjDM-XsoHUQ)\n- WHAT IS OPEN SCIENCE? | An introduction series to open science [Webinar](ihttps://www.youtube.com/watch?v=mVCDkhxxUgg) \n- Reproducibility and Open Science [OnlineTalk](https://www.youtube.com/watch?v=VjDM-XsoHUQ)\n"},{"_path":"/modules/oss-libraries/context","_dir":"oss-libraries","_draft":false,"_partial":false,"_locale":"","title":"Background unit 1","description":"","type":"reading","order":1,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"background"},"children":[{"type":"text","value":"Background"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"It is common for developers to use open-source libraries and frameworks: open-source software is freely available, often robust, and flexible. Using OSS libraries makes the developer’s work easier avoiding the developers starting each time from scratch which is inefficient (long time to reach a stable software release) and lead to duplication of effort. One of the first tasks of RSE at the eScience center is to identify potential OSS libraries and use them appropriately. In Unit 1, we cover the basics of OSS libraries which hopefully will help you to make well-informed decisions about OSS libraries in your projects."}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"background","depth":3,"text":"Background"}]}},"_type":"markdown","_id":"local_fs:modules:Oss-libraries:context.md","_source":"local_fs","_file":"modules/Oss-libraries/context.md","_extension":"md","plainText":"---\ntitle: Background unit 1 \ntype: reading\norder: 1 \n---\n\n### Background \nIt is common for developers to use open-source libraries and frameworks: open-source software is freely available, often robust, and flexible. Using OSS libraries makes the developer’s work easier avoiding the developers starting each time from scratch which is inefficient (long time to reach a stable software release) and lead to duplication of effort. One of the first tasks of RSE at the eScience center is to identify potential OSS libraries and use them appropriately. In Unit 1, we cover the basics of OSS libraries which hopefully will help you to make well-informed decisions about OSS libraries in your projects.\n"},{"_path":"/modules/oss-libraries/further_reading","_dir":"oss-libraries","_draft":false,"_partial":false,"_locale":"","title":"Further Reading","description":"","type":"reading","order":6,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"further-reading"},"children":[{"type":"text","value":"Further Reading"}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"further-reading","depth":3,"text":"Further Reading"}]}},"_type":"markdown","_id":"local_fs:modules:Oss-libraries:further_reading.md","_source":"local_fs","_file":"modules/Oss-libraries/further_reading.md","_extension":"md","plainText":"---\ntitle: Further Reading \ntype: reading\norder: 6\n---\n\n### Further Reading\n\n"},{"_path":"/modules/oss-libraries","_dir":"modules","_draft":false,"_partial":false,"_locale":"","title":"OSS libraries","description":"Photo by TODO on Unsplash","category":"Module4","order":1,"author":"eScience Center","abstract":null,"thumbnail":"open-source-software-1.jpg","visibility":"visible","body":{"type":"root","children":[{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Photo by "},{"type":"element","tag":"a","props":{"href":""},"children":[{"type":"text","value":"TODO"}]},{"type":"text","value":" on "},{"type":"element","tag":"a","props":{"href":"https://csharp-station.com/Tutorial/CSharp/Lesson19"},"children":[{"type":"text","value":"Unsplash"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:Oss-libraries:index.md","_source":"local_fs","_file":"modules/Oss-libraries/index.md","_extension":"md","plainText":"---\ntitle: OSS libraries \ncategory: Module4\norder: 1 \nauthor: eScience Center\nabstract: \nthumbnail: \"open-source-software-1.jpg\"\nvisibility: visible\n---\n\n\nPhoto by TODO on Unsplash\n \n \n"},{"_path":"/modules/oss-libraries/info","_dir":"oss-libraries","_draft":false,"_partial":false,"_locale":"","title":"Learning objectives","description":"","type":"info","order":0,"body":{"type":"root","children":[{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Understand the Benefits and Risks of Using Open-Source Software (OSS): Learners will be able to explain the advantages of using OSS libraries, including saving development time, reducing duplication of effort, and promoting collaboration, while also identifying and mitigating potential risks associated with their use."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Evaluate OSS Libraries for Project Integration: Learners will be able to assess OSS libraries based on criteria such as development philosophy, community support, licensing, and compatibility, to make informed decisions on which libraries to incorporate into their projects."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Manage OSS Library Usage and Contributions"},{"type":"element","tag":"div","props":{},"children":[]},{"type":"text","value":" will be able to manage the integration and contribution to OSS projects, understanding the organizational risks, governance, and best practices for using and contributing to OSS without compromising security, stability, or business objectives."},{"type":"element","tag":"br","props":{},"children":[]}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:Oss-libraries:info.md","_source":"local_fs","_file":"modules/Oss-libraries/info.md","_extension":"md","plainText":"---\ntitle: Learning objectives\ntype: info\norder: 0\n---\n\n\n- Understand the Benefits and Risks of Using Open-Source Software (OSS): Learners will be able to explain the advantages of using OSS libraries, including saving development time, reducing duplication of effort, and promoting collaboration, while also identifying and mitigating potential risks associated with their use.\n\n- Evaluate OSS Libraries for Project Integration: Learners will be able to assess OSS libraries based on criteria such as development philosophy, community support, licensing, and compatibility, to make informed decisions on which libraries to incorporate into their projects.\n\n- Manage OSS Library Usage and Contributions:Learners will be able to manage the integration and contribution to OSS projects, understanding the organizational risks, governance, and best practices for using and contributing to OSS without compromising security, stability, or business objectives.\n"},{"_path":"/modules/oss-libraries/instructions","_dir":"oss-libraries","_draft":false,"_partial":false,"_locale":"","title":"Unit 1 Instructions","description":"","type":"reading","order":2,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"instructions"},"children":[{"type":"text","value":"Instructions"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"For Unit 1, we selected three references which give you an overview of the points you should consider when using an Open-Source Software library in your project. "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"1"}]},{"type":"text","value":" Is a web page part of the Opensource.com web which introduces opensource through a set of questions and points you to more resources on the topic. "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"2"}]},{"type":"text","value":" is a lecture given at the University of Nottingham and introduce a few concepts related to Open-Source Software like different philosophy of software development, third party libraries, build systems, Free software foundation, and a few industries use case. "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"3"}]},{"type":"text","value":" is article covering the risks of using OSS by corporates, the article explains how to control risks related to the use and contribution to open source without reducing its business potential."}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"To complete Unit 6, you are expected to:"}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Read/watch the suggested teaching material."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Please send the list of questions to your coach one day before."}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Important: the proposed material includes hands-on assignments. Do try them and if you encounter issues you cannot solve, do share them with your coach."}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Time expected to complete this unit: "},{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"4 hours"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"instructions","depth":3,"text":"Instructions"}]}},"_type":"markdown","_id":"local_fs:modules:Oss-libraries:instructions.md","_source":"local_fs","_file":"modules/Oss-libraries/instructions.md","_extension":"md","plainText":"---\ntitle: Unit 1 Instructions \ntype: reading\norder: 2\n---\n\n### Instructions \nFor Unit 1, we selected three references which give you an overview of the points you should consider when using an Open-Source Software library in your project. [1] Is a web page part of the Opensource.com web which introduces opensource through a set of questions and points you to more resources on the topic. [2] is a lecture given at the University of Nottingham and introduce a few concepts related to Open-Source Software like different philosophy of software development, third party libraries, build systems, Free software foundation, and a few industries use case. [3] is article covering the risks of using OSS by corporates, the article explains how to control risks related to the use and contribution to open source without reducing its business potential. \n\nTo complete Unit 6, you are expected to: \n\n - Read/watch the suggested teaching material. \n\n - Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach. \n\n - Please send the list of questions to your coach one day before. \n\nImportant: the proposed material includes hands-on assignments. Do try them and if you encounter issues you cannot solve, do share them with your coach. \n\nTime expected to complete this unit: **4 hours**\n"},{"_path":"/modules/oss-libraries/slides-oos-libraries","_dir":"oss-libraries","_draft":false,"_partial":false,"_locale":"","title":"Using OSS libraries","description":"===","type":"slides","order":3,"body":{"type":"root","children":[{"type":"element","tag":"h1","props":{"id":"using-oss-libraries"},"children":[{"type":"text","value":"Using OSS libraries"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"h2","props":{"id":"using-oss-libraries"},"children":[{"type":"text","value":"Using OSS libraries "},{"type":"element","tag":"todo","props":{},"children":[]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"http://www.esciencecenter.nl","rel":["nofollow"]},"children":[{"type":"text","value":"www.esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"mailto:info@esciencecenter.nl"},"children":[{"type":"text","value":"info@esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"020 - 460 47 70"}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"using-oss-libraries","depth":2,"text":"Using OSS libraries "}]}},"_type":"markdown","_id":"local_fs:modules:Oss-libraries:slides-oos-libraries.md","_source":"local_fs","_file":"modules/Oss-libraries/slides-oos-libraries.md","_extension":"md","plainText":"---\ntitle: Using OSS libraries\ntype: slides\norder: 3\n---\n\n\n\n# Using OSS libraries\n\n===\n\n\n\n## Using OSS libraries \n \n\n===\n\n\n\nwww.esciencecenter.nl\n\ninfo@esciencecenter.nl\n \n020 - 460 47 70 \n"},{"_path":"/modules/oss-libraries/teaching_material","_dir":"oss-libraries","_draft":false,"_partial":false,"_locale":"","title":"Teaching Material","description":"","type":"exercise","order":5,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"teaching-material"},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Teaching Material"}]}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"What is Open Source @opensources.com "},{"type":"element","tag":"a","props":{"href":"https://opensource.com/resources/what-open-source","rel":["nofollow"]},"children":[{"type":"text","value":"WebResource"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Open-Source Software and Software Libraries "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=7NgCXVGHOQY","rel":["nofollow"]},"children":[{"type":"text","value":"OnlineCourse"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"The Risks of Open Source software for Corporate use "},{"type":"element","tag":"a","props":{"href":"https://www.compact.nl/articles/the-risks-of-open-source-software-for-corporate-use/","rel":["nofollow"]},"children":[{"type":"text","value":"OnlineArticle"}]}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"teaching-material","depth":3,"text":"Teaching Material"}]}},"_type":"markdown","_id":"local_fs:modules:Oss-libraries:teaching_material.md","_source":"local_fs","_file":"modules/Oss-libraries/teaching_material.md","_extension":"md","plainText":"---\ntitle: Teaching Material \ntype: exercise\norder: 5\n---\n\n### **Teaching Material**\n\n\n- What is Open Source @opensources.com [WebResource](https://opensource.com/resources/what-open-source)\n- Open-Source Software and Software Libraries [OnlineCourse](https://www.youtube.com/watch?v=7NgCXVGHOQY)\n- The Risks of Open Source software for Corporate use [OnlineArticle](https://www.compact.nl/articles/the-risks-of-open-source-software-for-corporate-use/) \n\n \n"},{"_path":"/modules/performance-optimization-and-parallelization/context","_dir":"performance-optimization-and-parallelization","_draft":false,"_partial":false,"_locale":"","title":"Background unit 5","description":"","type":"reading","order":1,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"background"},"children":[{"type":"text","value":"Background"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"As modern computing resources are increasingly geared towards the parallel execution of multiple programs. Nowadays, computing resources can be classified according to the level at which the hardware supports parallelism, with multi-core and multi-processor computers having multiple processing elements within a single machine, while clusters and clouds use multiple computers to work on the same task. Developing skills to write parallel programs becomes essential to exploit the available computing power."}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"background","depth":3,"text":"Background"}]}},"_type":"markdown","_id":"local_fs:modules:Performance-optimization-and-parallelization:context.md","_source":"local_fs","_file":"modules/Performance-optimization-and-parallelization/context.md","_extension":"md","plainText":"---\ntitle: Background unit 5 \ntype: reading\norder: 1 \n---\n\n### Background \nAs modern computing resources are increasingly geared towards the parallel execution of multiple programs. Nowadays, computing resources can be classified according to the level at which the hardware supports parallelism, with multi-core and multi-processor computers having multiple processing elements within a single machine, while clusters and clouds use multiple computers to work on the same task. Developing skills to write parallel programs becomes essential to exploit the available computing power.\n"},{"_path":"/modules/performance-optimization-and-parallelization/further_reading","_dir":"performance-optimization-and-parallelization","_draft":false,"_partial":false,"_locale":"","title":"Further Reading","description":"","type":"reading","order":6,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"further-reading"},"children":[{"type":"text","value":"Further Reading"}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Parallel programming, EPFL "},{"type":"element","tag":"a","props":{"href":"https://www.coursera.org/learn/scala-parallel-programming#syllabus","rel":["nofollow"]},"children":[{"type":"text","value":"MOOC"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Advanced Python Multithreading in Python: "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=_4Y7-NSiOEs","rel":["nofollow"]},"children":[{"type":"text","value":"IO-Bound vs CPU-Bound"}]},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=d1jfCRc9zCU&list=PLE3Y6O9R81lw1G5LujnP2fwJ-dgnX0m6r&index=34","rel":["nofollow"]},"children":[{"type":"text","value":"Multi-core and Hyperthreading"}]}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"further-reading","depth":3,"text":"Further Reading"}]}},"_type":"markdown","_id":"local_fs:modules:Performance-optimization-and-parallelization:further_reading.md","_source":"local_fs","_file":"modules/Performance-optimization-and-parallelization/further_reading.md","_extension":"md","plainText":"---\ntitle: Further Reading \ntype: reading\norder: 6\n---\n\n### Further Reading\n\n\n- Parallel programming, EPFL [MOOC](https://www.coursera.org/learn/scala-parallel-programming#syllabus)\n\n- Advanced Python Multithreading in Python: [IO-Bound vs CPU-Bound](https://www.youtube.com/watch?v=_4Y7-NSiOEs)[Multi-core and Hyperthreading](https://www.youtube.com/watch?v=d1jfCRc9zCU&list=PLE3Y6O9R81lw1G5LujnP2fwJ-dgnX0m6r&index=34)\n"},{"_path":"/modules/performance-optimization-and-parallelization","_dir":"modules","_draft":false,"_partial":false,"_locale":"","title":"Performance optimization and parallelization","description":"Photo by TODO on Unsplash","category":"Module1","order":5,"author":"eScience Center","abstract":null,"thumbnail":"performance-optimization.jpeg","visibility":"visible","body":{"type":"root","children":[{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Photo by "},{"type":"element","tag":"a","props":{"href":""},"children":[{"type":"text","value":"TODO"}]},{"type":"text","value":" on "},{"type":"element","tag":"a","props":{"href":"https://csharp-station.com/Tutorial/CSharp/Lesson19"},"children":[{"type":"text","value":"Unsplash"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:Performance-optimization-and-parallelization:index.md","_source":"local_fs","_file":"modules/Performance-optimization-and-parallelization/index.md","_extension":"md","plainText":"---\ntitle: Performance optimization and parallelization \ncategory: Module1\norder: 5 \nauthor: eScience Center\nabstract: \nthumbnail: \"performance-optimization.jpeg\"\nvisibility: visible\n---\n\n\nPhoto by TODO on Unsplash\n \n \n"},{"_path":"/modules/performance-optimization-and-parallelization/info","_dir":"performance-optimization-and-parallelization","_draft":false,"_partial":false,"_locale":"","title":"Learning objectives","description":"After completing unit 5 you will have acquired a basic concept of performance optimization and parallelization like speedup, scalability, Amdahl’s and Gustafson’s laws, how to design parallel programs, domain decomposition, synchronization, etc.","type":"info","order":0,"body":{"type":"root","children":[{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"After completing unit 5 you will have acquired a basic concept of performance optimization and parallelization like speedup, scalability, Amdahl’s and Gustafson’s laws, how to design parallel programs, domain decomposition, synchronization, etc."}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Understand Parallel Computing Architectures: Learners will be able to describe the classification of modern computing resources based on hardware-supported parallelism, including multi-core systems, multi-processor machines, clusters, and cloud infrastructures."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Analyze Performance Optimization in Parallel Programming: Learners will be able to identify key performance considerations in parallel programming and explain how to optimize programs to effectively utilize available computing power."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Apply Basic Parallel Programming Concepts"},{"type":"element","tag":"div","props":{},"children":[]},{"type":"text","value":" will be able to write and analyze simple parallel programs using insights from the Livermore Computing Center tutorial and Mats Brorsson's lecture, focusing on performance optimization and resource utilization."},{"type":"element","tag":"br","props":{},"children":[]}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:Performance-optimization-and-parallelization:info.md","_source":"local_fs","_file":"modules/Performance-optimization-and-parallelization/info.md","_extension":"md","plainText":"---\ntitle: Learning objectives\ntype: info\norder: 0\n---\n\nAfter completing unit 5 you will have acquired a basic concept of performance optimization and parallelization like speedup, scalability, Amdahl’s and Gustafson’s laws, how to design parallel programs, domain decomposition, synchronization, etc.\n\n- Understand Parallel Computing Architectures: Learners will be able to describe the classification of modern computing resources based on hardware-supported parallelism, including multi-core systems, multi-processor machines, clusters, and cloud infrastructures.\n\n- Analyze Performance Optimization in Parallel Programming: Learners will be able to identify key performance considerations in parallel programming and explain how to optimize programs to effectively utilize available computing power.\n\n- Apply Basic Parallel Programming Concepts:Learners will be able to write and analyze simple parallel programs using insights from the Livermore Computing Center tutorial and Mats Brorsson's lecture, focusing on performance optimization and resource utilization.\n"},{"_path":"/modules/performance-optimization-and-parallelization/instructions","_dir":"performance-optimization-and-parallelization","_draft":false,"_partial":false,"_locale":"","title":"Unit 5 Instructions","description":"","type":"reading","order":2,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"instructions"},"children":[{"type":"text","value":"Instructions"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"For Unit 5, we selected two references which will help you to acquire the necessary knowledge of performance optimization and parallel programming. The Introduction to Parallel Computing Tutorial given by the Livermore computing Center is an excellent introduction to the topics of this Unit "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"1"}]},{"type":"text","value":". This tutorial can be combined with the 20 minutes introduction to parallel programming: Performance aspects, by Mats Brorsson from University of Luxembourg "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"2"}]},{"type":"text","value":"."}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"To complete Unit 5, you are expected to:"}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Read/watch the suggested teaching material."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Please send the list of questions to your coach one day before."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Practical hands-on for this unit are provided by the material used for eScience Center External Training program "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"4"}]},{"type":"text","value":". You can do the hands-on individually or join a the eScience Center external workshop. Check the eScience Digital-skills for the workshops schedule, contact the eScience Center Training to check whether there is still space for you to join."}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Time expected to complete this unit: "},{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"4 hours"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"instructions","depth":3,"text":"Instructions"}]}},"_type":"markdown","_id":"local_fs:modules:Performance-optimization-and-parallelization:instructions.md","_source":"local_fs","_file":"modules/Performance-optimization-and-parallelization/instructions.md","_extension":"md","plainText":"---\ntitle: Unit 5 Instructions \ntype: reading\norder: 2\n---\n\n### Instructions \n\nFor Unit 5, we selected two references which will help you to acquire the necessary knowledge of performance optimization and parallel programming. The Introduction to Parallel Computing Tutorial given by the Livermore computing Center is an excellent introduction to the topics of this Unit [1]. This tutorial can be combined with the 20 minutes introduction to parallel programming: Performance aspects, by Mats Brorsson from University of Luxembourg [2].\n\nTo complete Unit 5, you are expected to:\n\n - Read/watch the suggested teaching material.\n\n - Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach.\n\n - Please send the list of questions to your coach one day before.\n\n - Practical hands-on for this unit are provided by the material used for eScience Center External Training program [4]. You can do the hands-on individually or join a the eScience Center external workshop. Check the eScience Digital-skills for the workshops schedule, contact the eScience Center Training to check whether there is still space for you to join.\n\nTime expected to complete this unit: **4 hours**\n"},{"_path":"/modules/performance-optimization-and-parallelization/slides-performance-optimization-and-parallelization","_dir":"performance-optimization-and-parallelization","_draft":false,"_partial":false,"_locale":"","title":"Performance-optimization-and-parallelization","description":"===","type":"slides","order":3,"body":{"type":"root","children":[{"type":"element","tag":"h1","props":{"id":"github-the-basics"},"children":[{"type":"text","value":"GitHub the basics"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"h2","props":{"id":"performance-optimization-and-parallelization"},"children":[{"type":"text","value":"Performance-optimization-and-parallelization 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"}]}},"_type":"markdown","_id":"local_fs:modules:Performance-optimization-and-parallelization:slides-performance-optimization-and-parallelization.md","_source":"local_fs","_file":"modules/Performance-optimization-and-parallelization/slides-performance-optimization-and-parallelization.md","_extension":"md","plainText":"---\ntitle: Performance-optimization-and-parallelization\ntype: slides\norder: 3\n---\n\n\n\n# GitHub the basics\n\n===\n\n\n\n## Performance-optimization-and-parallelization \n \n\n===\n\n\n\nwww.esciencecenter.nl\n\ninfo@esciencecenter.nl\n \n020 - 460 47 70 \n"},{"_path":"/modules/performance-optimization-and-parallelization/teaching_material","_dir":"performance-optimization-and-parallelization","_draft":false,"_partial":false,"_locale":"","title":"Teaching Material","description":"","type":"exercise","order":5,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"teaching-material"},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Teaching Material"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Introduction to Parallel computing, Livermore Computing Center "},{"type":"element","tag":"a","props":{"href":"https://hpc.llnl.gov/documentation/tutorials/introduction-parallel-computing-tutorial","rel":["nofollow"]},"children":[{"type":"text","value":"Online Tutorial"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"threading vs multiprocessing in python "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=AZnGRKFUU0c","rel":["nofollow"]},"children":[{"type":"text","value":"Talk"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Performing Asynchronous I/O Bound Operations (Jeffrey Richter) "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=hB0K1JWFoqs","rel":["nofollow"]},"children":[{"type":"text","value":"Talk"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Programming Paradigms material proposed by the NLeSC external Training: intermediate Research software Development "},{"type":"element","tag":"a","props":{"href":"https://carpentries-incubator.github.io/lesson-parallel-python/","rel":["nofollow"]},"children":[{"type":"text","value":"online Material"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"teaching-material","depth":3,"text":"Teaching Material"}]}},"_type":"markdown","_id":"local_fs:modules:Performance-optimization-and-parallelization:teaching_material.md","_source":"local_fs","_file":"modules/Performance-optimization-and-parallelization/teaching_material.md","_extension":"md","plainText":"---\ntitle: Teaching Material \ntype: exercise\norder: 5\n---\n\n### **Teaching Material**\n\n\nIntroduction to Parallel computing, Livermore Computing Center [Online Tutorial](https://hpc.llnl.gov/documentation/tutorials/introduction-parallel-computing-tutorial)\n\nthreading vs multiprocessing in python [Talk](https://www.youtube.com/watch?v=AZnGRKFUU0c)\n\nPerforming Asynchronous I/O Bound Operations (Jeffrey Richter) [Talk](https://www.youtube.com/watch?v=hB0K1JWFoqs) \n\nProgramming Paradigms material proposed by the NLeSC external Training: intermediate Research software Development [online Material](https://carpentries-incubator.github.io/lesson-parallel-python/) \n\n"},{"_path":"/modules/programming-paradigms/context","_dir":"programming-paradigms","_draft":false,"_partial":false,"_locale":"","title":"Background unit 2","description":"","type":"reading","order":1,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"background"},"children":[{"type":"text","value":"Background"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"For Unit 2, we selected a number of references which will help you go beyond just knowing the syntax of the language.\n"},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=Pg3UeB-5FdA","rel":["nofollow"]},"children":[{"type":"text","value":"teaching material 1"}]},{"type":"text","value":" is a talk given at a conference in 2017 which goes over the common programming paradigm and explains the similarities and the differences.\n"},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=Ps8jOj7diA0","rel":["nofollow"]},"children":[{"type":"text","value":"teaching material 2"}]},{"type":"text","value":" is the first lecture of course at Stanford university which aims to teach several programming languages.\nThe lecture is a general introduction to the course, it stresses the intellectual value of learning a programming language which is to study the paradigm they represent, so do not focus on the details but more on how the lecturer makes the link between a language and its paradigm."}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"background","depth":3,"text":"Background"}]}},"_type":"markdown","_id":"local_fs:modules:Programming-paradigms:context.md","_source":"local_fs","_file":"modules/Programming-paradigms/context.md","_extension":"md","plainText":"---\ntitle: Background unit 2 \ntype: reading\norder: 1\n---\n\n### Background \n\nFor Unit 2, we selected a number of references which will help you go beyond just knowing the syntax of the language.\n[teaching material 1](https://www.youtube.com/watch?v=Pg3UeB-5FdA) is a talk given at a conference in 2017 which goes over the common programming paradigm and explains the similarities and the differences. \n[teaching material 2](https://www.youtube.com/watch?v=Ps8jOj7diA0) is the first lecture of course at Stanford university which aims to teach several programming languages. \nThe lecture is a general introduction to the course, it stresses the intellectual value of learning a programming language which is to study the paradigm they represent, so do not focus on the details but more on how the lecturer makes the link between a language and its paradigm.\n"},{"_path":"/modules/programming-paradigms/further_reading","_dir":"programming-paradigms","_draft":false,"_partial":false,"_locale":"","title":"Further Reading","description":"","type":"reading","order":5,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"further-reading"},"children":[{"type":"text","value":"Further Reading"}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"further-reading","depth":3,"text":"Further Reading"}]}},"_type":"markdown","_id":"local_fs:modules:Programming-paradigms:further_reading.md","_source":"local_fs","_file":"modules/Programming-paradigms/further_reading.md","_extension":"md","plainText":"---\ntitle: Further Reading \ntype: reading\norder: 5\n---\n\n### Further Reading\n"},{"_path":"/modules/programming-paradigms","_dir":"modules","_draft":false,"_partial":false,"_locale":"","title":"Programming paradigms","description":"Photo by TODO on Unsplash","category":"Module1","order":2,"author":"eScience Center","abstract":null,"thumbnail":"programming-paradigms.jpeg","visibility":"visible","body":{"type":"root","children":[{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Photo by "},{"type":"element","tag":"a","props":{"href":""},"children":[{"type":"text","value":"TODO"}]},{"type":"text","value":" on "},{"type":"element","tag":"a","props":{"href":"https://csharp-station.com/Tutorial/CSharp/Lesson19"},"children":[{"type":"text","value":"Unsplash"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:Programming-paradigms:index.md","_source":"local_fs","_file":"modules/Programming-paradigms/index.md","_extension":"md","plainText":"---\ntitle: Programming paradigms \ncategory: Module1\norder: 2 \nauthor: eScience Center\nabstract: \nthumbnail: \"programming-paradigms.jpeg\"\nvisibility: visible\n---\n\n\nPhoto by TODO on Unsplash\n \n \n"},{"_path":"/modules/programming-paradigms/info","_dir":"programming-paradigms","_draft":false,"_partial":false,"_locale":"","title":"Learning objectives","description":"Unit 2 aims to raise your awareness about the fact that when you choose a programming language for your project.","type":"info","order":0,"body":{"type":"root","children":[{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Unit 2 aims to raise your awareness about the fact that when you choose a programming language for your project."}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Analyze Programming Paradigms: Learners will be able to compare and contrast common programming paradigms by identifying their key characteristics, similarities, and differences."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Understand the Intellectual Value of Programming Languages: Learners will be able to explain the intellectual benefits of studying programming languages by linking specific languages to the paradigms they represent."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Develop Critical Thinking Skills in Paradigm Application: Learners will be able to evaluate the suitability of different programming paradigms for various problem-solving scenarios."}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Note"}]},{"type":"text","value":": It is advised that you develop more in-depth knowledge about the programming paradigm you will use during the project which is beyond the scope of this unit."}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:Programming-paradigms:info.md","_source":"local_fs","_file":"modules/Programming-paradigms/info.md","_extension":"md","plainText":"---\ntitle: Learning objectives\ntype: info\norder: 0\n---\n\nUnit 2 aims to raise your awareness about the fact that when you choose a programming language for your project.\n\n- Analyze Programming Paradigms: Learners will be able to compare and contrast common programming paradigms by identifying their key characteristics, similarities, and differences.\n\n- Understand the Intellectual Value of Programming Languages: Learners will be able to explain the intellectual benefits of studying programming languages by linking specific languages to the paradigms they represent.\n\n- Develop Critical Thinking Skills in Paradigm Application: Learners will be able to evaluate the suitability of different programming paradigms for various problem-solving scenarios.\n\n**Note**: It is advised that you develop more in-depth knowledge about the programming paradigm you will use during the project which is beyond the scope of this unit.\n"},{"_path":"/modules/programming-paradigms/instructions","_dir":"programming-paradigms","_draft":false,"_partial":false,"_locale":"","title":"Unit 2 Instructions","description":"","type":"reading","order":2,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"instructions"},"children":[{"type":"text","value":"Instructions"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"To complete Unit 2, you are expected to:"}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Please send the list of questions to your coach one day before."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Practical hands-on for this unit are provided by the material used for eScience Center External Training program "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"3"}]},{"type":"text","value":".\nYou can do the hands-on individually or join a the eScience Center external workshop.\nCheck the eScience "},{"type":"element","tag":"a","props":{"href":"https://www.esciencecenter.nl/digital-skills/","rel":["nofollow"]},"children":[{"type":"text","value":"Digital-skills"}]},{"type":"text","value":" for the workshops schedule,\ncontact the "},{"type":"element","tag":"a","props":{"href":"mailto:training@esciencecenter.nl"},"children":[{"type":"text","value":"eScience Center Training"}]},{"type":"text","value":" to check whether there is still space for you to join."}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"instructions","depth":3,"text":"Instructions"}]}},"_type":"markdown","_id":"local_fs:modules:Programming-paradigms:instructions.md","_source":"local_fs","_file":"modules/Programming-paradigms/instructions.md","_extension":"md","plainText":"---\ntitle: Unit 2 Instructions \ntype: reading\norder: 2\n---\n\n### Instructions \n\nTo complete Unit 2, you are expected to:\n\n - Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach.\n\n - Please send the list of questions to your coach one day before.\n\n - Practical hands-on for this unit are provided by the material used for eScience Center External Training program [3]. \n You can do the hands-on individually or join a the eScience Center external workshop. \n Check the eScience [Digital-skills](https://www.esciencecenter.nl/digital-skills/) for the workshops schedule, \n contact the [eScience Center Training](mailto:training@esciencecenter.nl) to check whether there is still space for you to join.\n"},{"_path":"/modules/programming-paradigms/slides-programing-paradigms","_dir":"programming-paradigms","_draft":false,"_partial":false,"_locale":"","title":"Programming paradigms","description":"===","type":"slides","order":3,"body":{"type":"root","children":[{"type":"element","tag":"h1","props":{"id":"programming-paradigms"},"children":[{"type":"text","value":"Programming paradigms"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"h2","props":{"id":"programming-paradigms"},"children":[{"type":"text","value":"Programming paradigms "},{"type":"element","tag":"todo","props":{},"children":[]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"http://www.esciencecenter.nl","rel":["nofollow"]},"children":[{"type":"text","value":"www.esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"mailto:info@esciencecenter.nl"},"children":[{"type":"text","value":"info@esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"020 - 460 47 70"}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"programming-paradigms","depth":2,"text":"Programming paradigms "}]}},"_type":"markdown","_id":"local_fs:modules:Programming-paradigms:slides-programing-paradigms.md","_source":"local_fs","_file":"modules/Programming-paradigms/slides-programing-paradigms.md","_extension":"md","plainText":"---\ntitle: Programming paradigms \ntype: slides\norder: 3\n---\n\n\n\n# Programming paradigms\n\n===\n\n\n\n## Programming paradigms \n \n\n===\n\n\n\nwww.esciencecenter.nl\n\ninfo@esciencecenter.nl\n \n020 - 460 47 70 \n"},{"_path":"/modules/programming-paradigms/teaching_material","_dir":"programming-paradigms","_draft":false,"_partial":false,"_locale":"","title":"Teaching Material","description":"","type":"exercise","order":3,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"teaching-material"},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Teaching Material"}]}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Programming Across Paradigms, by AnjanaVakil GOTO conf. 2017 "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=Pg3UeB-5FdA","rel":["nofollow"]},"children":[{"type":"text","value":"Talk"}]},{"type":"text","value":" "},{"type":"element","tag":"a","props":{"href":"https://files.gotocon.com/uploads/slides/conference_3/78/original/Programming%20across%20Paradigms.pdf","rel":["nofollow"]},"children":[{"type":"text","value":"Slides"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Programming Paradigms, Jerry Cain, Stanford university "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=Ps8jOj7diA0","rel":["nofollow"]},"children":[{"type":"text","value":"Lecture 1"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Programming Paradigms material proposed by the NLeSC external Training: intermediate Research software Development "},{"type":"element","tag":"a","props":{"href":"https://carpentries-incubator.github.io/python-intermediate-development/33-programming-paradigms/index.html","rel":["nofollow"]},"children":[{"type":"text","value":"online Material"}]}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Time expected to complete this unit: "},{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"4 hours"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"teaching-material","depth":3,"text":"Teaching Material"}]}},"_type":"markdown","_id":"local_fs:modules:Programming-paradigms:teaching_material.md","_source":"local_fs","_file":"modules/Programming-paradigms/teaching_material.md","_extension":"md","plainText":"---\ntitle: Teaching Material \ntype: exercise\norder: 3\n---\n\n### **Teaching Material**\n\n\n- Programming Across Paradigms, by AnjanaVakil GOTO conf. 2017 [Talk](https://www.youtube.com/watch?v=Pg3UeB-5FdA) [Slides](https://files.gotocon.com/uploads/slides/conference_3/78/original/Programming%20across%20Paradigms.pdf)\n- Programming Paradigms, Jerry Cain, Stanford university [Lecture 1](https://www.youtube.com/watch?v=Ps8jOj7diA0)\n- Programming Paradigms material proposed by the NLeSC external Training: intermediate Research software Development [online Material](https://carpentries-incubator.github.io/python-intermediate-development/33-programming-paradigms/index.html) \n \nTime expected to complete this unit: **4 hours** \n"},{"_path":"/modules/readability-and-code-formating/context","_dir":"readability-and-code-formating","_draft":false,"_partial":false,"_locale":"","title":"Background unit 3","description":"","type":"reading","order":1,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"background"},"children":[{"type":"text","value":"Background"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Mode readability is an important quality of good code, it is a subjective topic which varies between developers. If code is easy to read, it will be easy to understand and easy to debug, maintain and extend, "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"1"}]},{"type":"text","value":" short video on the importance of code formatting. Writing complicated code is easy, writing simple code is harder and takes longer. Learning to make code readable/understandable is difficult for inexperienced developers because it can be difficult to quantify the differences between readable code and un-readable code."}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"background","depth":3,"text":"Background"}]}},"_type":"markdown","_id":"local_fs:modules:Readability-and-code-formating:context.md","_source":"local_fs","_file":"modules/Readability-and-code-formating/context.md","_extension":"md","plainText":"---\ntitle: Background unit 3 \ntype: reading\norder: 1\n---\n\n### Background \nMode readability is an important quality of good code, it is a subjective topic which varies between developers. If code is easy to read, it will be easy to understand and easy to debug, maintain and extend, [1] short video on the importance of code formatting. Writing complicated code is easy, writing simple code is harder and takes longer. Learning to make code readable/understandable is difficult for inexperienced developers because it can be difficult to quantify the differences between readable code and un-readable code. \n"},{"_path":"/modules/readability-and-code-formating/further_reading","_dir":"readability-and-code-formating","_draft":false,"_partial":false,"_locale":"","title":"Further Reading","description":"","type":"reading","order":5,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"further-reading"},"children":[{"type":"text","value":"Further Reading"}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"further-reading","depth":3,"text":"Further Reading"}]}},"_type":"markdown","_id":"local_fs:modules:Readability-and-code-formating:further_reading.md","_source":"local_fs","_file":"modules/Readability-and-code-formating/further_reading.md","_extension":"md","plainText":"---\ntitle: Further Reading \ntype: reading\norder: 5\n---\n\n### Further Reading\n\n"},{"_path":"/modules/readability-and-code-formating","_dir":"modules","_draft":false,"_partial":false,"_locale":"","title":"Readability and code formatting","description":"Photo by TODO on Unsplash","category":"Module2","order":3,"author":"eScience Center","abstract":null,"thumbnail":"Code-readability.png","visibility":"visible","body":{"type":"root","children":[{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Photo by "},{"type":"element","tag":"a","props":{"href":""},"children":[{"type":"text","value":"TODO"}]},{"type":"text","value":" on "},{"type":"element","tag":"a","props":{"href":"https://csharp-station.com/Tutorial/CSharp/Lesson19"},"children":[{"type":"text","value":"Unsplash"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:Readability-and-code-formating:index.md","_source":"local_fs","_file":"modules/Readability-and-code-formating/index.md","_extension":"md","plainText":"---\ntitle: Readability and code formatting\ncategory: Module2\norder: 3 \nauthor: eScience Center\nabstract: \nthumbnail: \"Code-readability.png\"\nvisibility: visible\n---\n\n\nPhoto by TODO on Unsplash\n \n \n"},{"_path":"/modules/readability-and-code-formating/info","_dir":"readability-and-code-formating","_draft":false,"_partial":false,"_locale":"","title":"Learning objectives","description":"","type":"info","order":0,"body":{"type":"root","children":[{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Understand the Importance of Code Readability: Learners will be able to explain how readable code enhances debugging, maintenance, and extensibility, and why it is essential for collaborative and long-term software development."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Apply Principles of Clean Code and Formatting: Learners will be able to write readable and well-formatted code by incorporating concepts from Clean Code by Robert C. Martin."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Follow Python-Specific Coding Standards: Learners will be able to apply the PEP8 guidelines to improve the readability and consistency of Python code, recognizing its relevance to common practices in modern programming environments."}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:Readability-and-code-formating:info.md","_source":"local_fs","_file":"modules/Readability-and-code-formating/info.md","_extension":"md","plainText":"---\ntitle: Learning objectives\ntype: info\norder: 0\n---\n\n- Understand the Importance of Code Readability: Learners will be able to explain how readable code enhances debugging, maintenance, and extensibility, and why it is essential for collaborative and long-term software development.\n\n- Apply Principles of Clean Code and Formatting: Learners will be able to write readable and well-formatted code by incorporating concepts from Clean Code by Robert C. Martin.\n\n- Follow Python-Specific Coding Standards: Learners will be able to apply the PEP8 guidelines to improve the readability and consistency of Python code, recognizing its relevance to common practices in modern programming environments.\n"},{"_path":"/modules/readability-and-code-formating/instructions","_dir":"readability-and-code-formating","_draft":false,"_partial":false,"_locale":"","title":"Unit 3 Instructions","description":"","type":"reading","order":2,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"instructions"},"children":[{"type":"text","value":"Instructions"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"For Unit 3, we selected a couple of references which will help to attract your attention to the importance of software readability and code formatting. "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"2"}]},{"type":"text","value":" is series of 10 videos based on the book “Clean Code by Robert C. Martin”. Like Unit 2, "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"3"}]},{"type":"text","value":" points to the Code Quality Chapter of the Turing way which convers enough details on the topic help you write a readable and will formatted code. Reference "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"4"}]},{"type":"text","value":" is an extra reference for Python programmers, which is quite common these days inside and outside the Center, it is a quick overview of PEP8 code."}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"To complete Unit 3, you are expected to:"}]}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Read/watch the suggested "},{"type":"element","tag":"a","props":{"href":"http://localhost:3000/internal-training/readability-and-code-formatting/teaching_material","rel":["nofollow"]},"children":[{"type":"text","value":"teaching material"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Please send the list of questions to your coach one day before the weekly meetings.."}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Time expected to complete this unit: "},{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"4 hours"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"instructions","depth":3,"text":"Instructions"}]}},"_type":"markdown","_id":"local_fs:modules:Readability-and-code-formating:instructions.md","_source":"local_fs","_file":"modules/Readability-and-code-formating/instructions.md","_extension":"md","plainText":"---\ntitle: Unit 3 Instructions \ntype: reading\norder: 2\n---\n\n### Instructions \n\nFor Unit 3, we selected a couple of references which will help to attract your attention to the importance of software readability and code formatting. [2] is series of 10 videos based on the book “Clean Code by Robert C. Martin”. Like Unit 2, [3] points to the Code Quality Chapter of the Turing way which convers enough details on the topic help you write a readable and will formatted code. Reference [4] is an extra reference for Python programmers, which is quite common these days inside and outside the Center, it is a quick overview of PEP8 code.\n \n**To complete Unit 3, you are expected to:** \n\n - Read/watch the suggested [teaching material](http://localhost:3000/internal-training/readability-and-code-formatting/teaching_material) \n - Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach. \n - Please send the list of questions to your coach one day before the weekly meetings.. \n\nTime expected to complete this unit: **4 hours**\n"},{"_path":"/modules/readability-and-code-formating/slides-readability-and-code-formating","_dir":"readability-and-code-formating","_draft":false,"_partial":false,"_locale":"","title":"Readability-and-code-formating","description":"===","type":"slides","order":3,"body":{"type":"root","children":[{"type":"element","tag":"h1","props":{"id":"readability-and-code-formating"},"children":[{"type":"text","value":"Readability-and-code-formating"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"h2","props":{"id":"readability-and-code-formating"},"children":[{"type":"text","value":"Readability-and-code-formating "},{"type":"element","tag":"todo","props":{},"children":[]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"http://www.esciencecenter.nl","rel":["nofollow"]},"children":[{"type":"text","value":"www.esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"mailto:info@esciencecenter.nl"},"children":[{"type":"text","value":"info@esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"020 - 460 47 70"}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"readability-and-code-formating","depth":2,"text":"Readability-and-code-formating "}]}},"_type":"markdown","_id":"local_fs:modules:Readability-and-code-formating:slides-readability-and-code-formating.md","_source":"local_fs","_file":"modules/Readability-and-code-formating/slides-readability-and-code-formating.md","_extension":"md","plainText":"---\ntitle: Readability-and-code-formating \ntype: slides\norder: 3\n---\n\n\n\n# Readability-and-code-formating\n\n===\n\n\n\n## Readability-and-code-formating \n \n\n===\n\n\n\nwww.esciencecenter.nl\n\ninfo@esciencecenter.nl\n \n020 - 460 47 70 \n"},{"_path":"/modules/readability-and-code-formating/teaching_material","_dir":"readability-and-code-formating","_draft":false,"_partial":false,"_locale":"","title":"Teaching Material","description":"","type":"exercise","order":3,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"teaching-material"},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Teaching Material"}]}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Python Code Formatting: The Key to Efficient Readability"},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=tpHH6OiA3Wk","rel":["nofollow"]},"children":[{"type":"text","value":"YouTube video"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Code Clean Series – based on the book “Clean Code by Robert C. Martin”"},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=-xiEX7AEJ_o&list=PLz1zqwR7fgeHv5z_phgWhC_BPOJuSaOZe&index=1&t=0s","rel":["nofollow"]},"children":[{"type":"text","value":"Playlist"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"The Turing way: code quality chapter "},{"type":"element","tag":"a","props":{"href":"https://the-turing-way.netlify.app/reproducible-research/code-quality.html","rel":["nofollow"]},"children":[{"type":"text","value":"Online book"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Writing Beautiful Python - An Overview of PEP 8 "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=5zrlZGyEwMM","rel":["nofollow"]},"children":[{"type":"text","value":"PyCon UK"}]}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"teaching-material","depth":3,"text":"Teaching Material"}]}},"_type":"markdown","_id":"local_fs:modules:Readability-and-code-formating:teaching_material.md","_source":"local_fs","_file":"modules/Readability-and-code-formating/teaching_material.md","_extension":"md","plainText":"---\ntitle: Teaching Material \ntype: exercise\norder: 3\n---\n\n### **Teaching Material**\n\n- Python Code Formatting: The Key to Efficient Readability[YouTube video](https://www.youtube.com/watch?v=tpHH6OiA3Wk)\n- Code Clean Series – based on the book “Clean Code by Robert C. Martin”[Playlist](https://www.youtube.com/watch?v=-xiEX7AEJ_o&list=PLz1zqwR7fgeHv5z_phgWhC_BPOJuSaOZe&index=1&t=0s)\n- The Turing way: code quality chapter [Online book](https://the-turing-way.netlify.app/reproducible-research/code-quality.html)\n- Writing Beautiful Python - An Overview of PEP 8 [PyCon UK](https://www.youtube.com/watch?v=5zrlZGyEwMM)\n"},{"_path":"/modules/requirement-engineering/context","_dir":"requirement-engineering","_draft":false,"_partial":false,"_locale":"","title":"Background unit 5","description":"","type":"reading","order":1,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"background"},"children":[{"type":"text","value":"Background"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Requirements Engineering is a fundamental element of software development, it has evolved to become a critical process that ensures the successful implementation of software projects. At the eScience center, we believe that great emphasis should be put on requirements engineering in all our software development projects. This is because requirements engineering helps to ensure that the software we develop meets the needs of the users and stakeholders, thereby increasing the likelihood of project success and user satisfaction."}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"background","depth":3,"text":"Background"}]}},"_type":"markdown","_id":"local_fs:modules:Requirement-engineering:context.md","_source":"local_fs","_file":"modules/Requirement-engineering/context.md","_extension":"md","plainText":"---\ntitle: Background unit 5 \ntype: reading\norder: 1\n---\n\n### Background \nRequirements Engineering is a fundamental element of software development, it has evolved to become a critical process that ensures the successful implementation of software projects. At the eScience center, we believe that great emphasis should be put on requirements engineering in all our software development projects. This is because requirements engineering helps to ensure that the software we develop meets the needs of the users and stakeholders, thereby increasing the likelihood of project success and user satisfaction.\n"},{"_path":"/modules/requirement-engineering/further_reading","_dir":"requirement-engineering","_draft":false,"_partial":false,"_locale":"","title":"Further Reading","description":"","type":"reading","order":5,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"further-reading"},"children":[{"type":"text","value":"Further Reading"}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"RequirementEngineering "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/playlist?list=PLUgFMzuE8lQDeixpbP3s6EyQx8PiNdeQL","rel":["nofollow"]},"children":[{"type":"text","value":"Full course"}]}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"further-reading","depth":3,"text":"Further Reading"}]}},"_type":"markdown","_id":"local_fs:modules:Requirement-engineering:further_reading.md","_source":"local_fs","_file":"modules/Requirement-engineering/further_reading.md","_extension":"md","plainText":"---\ntitle: Further Reading \ntype: reading\norder: 5\n---\n\n### Further Reading\n\n- RequirementEngineering [Full course](https://www.youtube.com/playlist?list=PLUgFMzuE8lQDeixpbP3s6EyQx8PiNdeQL)\n"},{"_path":"/modules/requirement-engineering","_dir":"modules","_draft":false,"_partial":false,"_locale":"","title":"Requirement engineering","description":"Photo by TODO on Unsplash","category":"Module2","order":5,"author":"eScience Center","abstract":null,"thumbnail":"requirements-engineering.jpg","visibility":"visible","body":{"type":"root","children":[{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Photo by "},{"type":"element","tag":"a","props":{"href":""},"children":[{"type":"text","value":"TODO"}]},{"type":"text","value":" on "},{"type":"element","tag":"a","props":{"href":"https://csharp-station.com/Tutorial/CSharp/Lesson19"},"children":[{"type":"text","value":"Unsplash"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:Requirement-engineering:index.md","_source":"local_fs","_file":"modules/Requirement-engineering/index.md","_extension":"md","plainText":"---\ntitle: Requirement engineering \ncategory: Module2\norder: 5\nauthor: eScience Center\nabstract: \nthumbnail: \"requirements-engineering.jpg\"\nvisibility: visible\n---\n\n\nPhoto by TODO on Unsplash\n \n \n"},{"_path":"/modules/requirement-engineering/info","_dir":"requirement-engineering","_draft":false,"_partial":false,"_locale":"","title":"Learning objectives","description":"","type":"info","order":0,"body":{"type":"root","children":[{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Understand the Importance of Requirements Engineering: Learners will be able to explain the role of requirements engineering in ensuring that software meets the needs of users and stakeholders, contributing to the success and satisfaction of software projects."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Explore Agile Methodologies in Software Development: Learners will be able to describe key Agile principles and how they are applied in the context of requirements engineering to enhance flexibility and responsiveness in software development."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Apply Requirements Engineering Practices in Software Projects"},{"type":"element","tag":"div","props":{},"children":[]},{"type":"text","value":" will be able to apply the principles of requirements engineering and Agile methodologies to develop clear, actionable requirements that align with user and stakeholder needs, improving the effectiveness of software development processes."},{"type":"element","tag":"br","props":{},"children":[]}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:Requirement-engineering:info.md","_source":"local_fs","_file":"modules/Requirement-engineering/info.md","_extension":"md","plainText":"---\ntitle: Learning objectives\ntype: info\norder: 0\n---\n\n- Understand the Importance of Requirements Engineering: Learners will be able to explain the role of requirements engineering in ensuring that software meets the needs of users and stakeholders, contributing to the success and satisfaction of software projects.\n\n- Explore Agile Methodologies in Software Development: Learners will be able to describe key Agile principles and how they are applied in the context of requirements engineering to enhance flexibility and responsiveness in software development.\n\n- Apply Requirements Engineering Practices in Software Projects:Learners will be able to apply the principles of requirements engineering and Agile methodologies to develop clear, actionable requirements that align with user and stakeholder needs, improving the effectiveness of software development processes.\n"},{"_path":"/modules/requirement-engineering/instructions","_dir":"requirement-engineering","_draft":false,"_partial":false,"_locale":"","title":"Unit 5 Instructions","description":"","type":"reading","order":2,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"instructions"},"children":[{"type":"text","value":"Instructions"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"For Unit 5, we have selected several videos from a comprehensive playlist that will help you develop a solid understanding of the principles of Software Requirements Engineering and Agile methodologies."}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"To complete Unit 5, you are expected to:"}]}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Read/watch the suggested "},{"type":"element","tag":"a","props":{"href":"http://localhost:3000/internal-training/Requirement-engineering/teaching_material","rel":["nofollow"]},"children":[{"type":"text","value":"teaching material"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Please send the list of questions to your coach one day before the weekly meetings.."}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Time expected to complete this unit: "},{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"4 hours"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"instructions","depth":3,"text":"Instructions"}]}},"_type":"markdown","_id":"local_fs:modules:Requirement-engineering:instructions.md","_source":"local_fs","_file":"modules/Requirement-engineering/instructions.md","_extension":"md","plainText":"---\ntitle: Unit 5 Instructions \ntype: reading\norder: 2\n---\n\n### Instructions \n\nFor Unit 5, we have selected several videos from a comprehensive playlist that will help you develop a solid understanding of the principles of Software Requirements Engineering and Agile methodologies. \n\n**To complete Unit 5, you are expected to:** \n\n - Read/watch the suggested [teaching material](http://localhost:3000/internal-training/Requirement-engineering/teaching_material) \n - Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach. \n - Please send the list of questions to your coach one day before the weekly meetings.. \n\nTime expected to complete this unit: **4 hours**\n"},{"_path":"/modules/requirement-engineering/slides-requirement-engineering","_dir":"requirement-engineering","_draft":false,"_partial":false,"_locale":"","title":"Requirement-engineering","description":"===","type":"slides","order":3,"body":{"type":"root","children":[{"type":"element","tag":"h1","props":{"id":"requirement-engineering"},"children":[{"type":"text","value":"Requirement-engineering"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"h2","props":{"id":"requirement-engineering"},"children":[{"type":"text","value":"Requirement-engineering "},{"type":"element","tag":"todo","props":{},"children":[]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"http://www.esciencecenter.nl","rel":["nofollow"]},"children":[{"type":"text","value":"www.esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"mailto:info@esciencecenter.nl"},"children":[{"type":"text","value":"info@esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"020 - 460 47 70"}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"requirement-engineering","depth":2,"text":"Requirement-engineering "}]}},"_type":"markdown","_id":"local_fs:modules:Requirement-engineering:slides-requirement-engineering.md","_source":"local_fs","_file":"modules/Requirement-engineering/slides-requirement-engineering.md","_extension":"md","plainText":"---\ntitle: Requirement-engineering \ntype: slides\norder: 3\n---\n\n\n\n# Requirement-engineering\n\n===\n\n\n\n## Requirement-engineering \n \n\n===\n\n\n\nwww.esciencecenter.nl\n\ninfo@esciencecenter.nl\n \n020 - 460 47 70 \n"},{"_path":"/modules/requirement-engineering/teaching_material","_dir":"requirement-engineering","_draft":false,"_partial":false,"_locale":"","title":"Teaching Material","description":"","type":"exercise","order":3,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"teaching-material"},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Teaching Material"}]}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Requirement engineering: "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=ZzO3oUA7pNw","rel":["nofollow"]},"children":[{"type":"text","value":"Process and Roles"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Requirement engineering: "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=fYAHXktQ2uI","rel":["nofollow"]},"children":[{"type":"text","value":"frameworks, templates and standards "}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"A week in a life of a Scrum Master "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=vwT3Aq5tl2Y","rel":["nofollow"]},"children":[{"type":"text","value":"YouTube lecture, 20mn"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Scrum Methodology | Agile Scrum Framework"},{"type":"element","tag":"a","props":{"href":""},"children":[]}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"teaching-material","depth":3,"text":"Teaching Material"}]}},"_type":"markdown","_id":"local_fs:modules:Requirement-engineering:teaching_material.md","_source":"local_fs","_file":"modules/Requirement-engineering/teaching_material.md","_extension":"md","plainText":"---\ntitle: Teaching Material \ntype: exercise\norder: 3\n---\n\n### **Teaching Material**\n\n- Requirement engineering: [Process and Roles](https://www.youtube.com/watch?v=ZzO3oUA7pNw)\n- Requirement engineering: [frameworks, templates and standards ](https://www.youtube.com/watch?v=fYAHXktQ2uI)\n- A week in a life of a Scrum Master [YouTube lecture, 20mn](https://www.youtube.com/watch?v=vwT3Aq5tl2Y) \n- Scrum Methodology | Agile Scrum Framework[]()\n"},{"_path":"/modules/research-software/context","_dir":"research-software","_draft":false,"_partial":false,"_locale":"","title":"Background unit 1","description":"","type":"reading","order":1,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"background"},"children":[{"type":"text","value":"Background"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Coding is just one element of the research software lifecycle. Successful research software starts first with intensive interactions with the problem owners (domain scientists) and ends with reaching out to the potential users, and there are many phases in between. In this unit we hope to raise awareness among the RSEs of the importance of certain aspects which cover the entire research software lifecycle and will have a crucial impact on the success of a given research software."}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"background","depth":3,"text":"Background"}]}},"_type":"markdown","_id":"local_fs:modules:Research-software:context.md","_source":"local_fs","_file":"modules/Research-software/context.md","_extension":"md","plainText":"---\ntitle: Background unit 1 \ntype: reading\norder: 1\n---\n\n### Background \nCoding is just one element of the research software lifecycle. Successful research software starts first with intensive interactions with the problem owners (domain scientists) and ends with reaching out to the potential users, and there are many phases in between. In this unit we hope to raise awareness among the RSEs of the importance of certain aspects which cover the entire research software lifecycle and will have a crucial impact on the success of a given research software. \n"},{"_path":"/modules/research-software/further_reading","_dir":"research-software","_draft":false,"_partial":false,"_locale":"","title":"Further Reading","description":"","type":"reading","order":5,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"further-reading"},"children":[{"type":"text","value":"Further Reading"}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"further-reading","depth":3,"text":"Further Reading"}]}},"_type":"markdown","_id":"local_fs:modules:Research-software:further_reading.md","_source":"local_fs","_file":"modules/Research-software/further_reading.md","_extension":"md","plainText":"---\ntitle: Further Reading \ntype: reading\norder: 5\n---\n\n### Further Reading\n"},{"_path":"/modules/research-software","_dir":"modules","_draft":false,"_partial":false,"_locale":"","title":"Research software","description":"Photo by TODO on Unsplash","category":"Module1","order":1,"author":"eScience Center","abstract":null,"thumbnail":"Research-software.jpeg","visibility":"visible","body":{"type":"root","children":[{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Photo by "},{"type":"element","tag":"a","props":{"href":""},"children":[{"type":"text","value":"TODO"}]},{"type":"text","value":" on "},{"type":"element","tag":"a","props":{"href":"https://csharp-station.com/Tutorial/CSharp/Lesson19"},"children":[{"type":"text","value":"Unsplash"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:Research-software:index.md","_source":"local_fs","_file":"modules/Research-software/index.md","_extension":"md","plainText":"---\ntitle: Research software \ncategory: Module1\norder: 1 \nauthor: eScience Center\nabstract: \nthumbnail: \"Research-software.jpeg\"\nvisibility: visible\n---\n\n\nPhoto by TODO on Unsplash\n \n \n"},{"_path":"/modules/research-software/info","_dir":"research-software","_draft":false,"_partial":false,"_locale":"","title":"Learning objectives","description":"","type":"info","order":0,"body":{"type":"root","children":[{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"after completing Unit 1 you will have learned\n"},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"the basics of reproducible research"}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"the basics of project design"}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"some important eScience best practices."}]}]}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Note"}]},{"type":"text","value":": Unit 1 does not involve practical hands-on. It involve reading proposed teaching material and discussing it within a group or with your coach."}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:Research-software:info.md","_source":"local_fs","_file":"modules/Research-software/info.md","_extension":"md","plainText":"---\ntitle: Learning objectives\ntype: info\norder: 0\n---\n- after completing Unit 1 you will have learned \n - the basics of reproducible research \n - the basics of project design \n - some important eScience best practices. \n\n **Note**: Unit 1 does not involve practical hands-on. It involve reading proposed teaching material and discussing it within a group or with your coach.\n\n"},{"_path":"/modules/research-software/instructions","_dir":"research-software","_draft":false,"_partial":false,"_locale":"","title":"Unit 1 Instructions","description":"","type":"reading","order":2,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"instructions"},"children":[{"type":"text","value":"Instructions"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"As an employee of the eScience Center a must-read document is the Netherlands eScience Center Guide "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"1"}]},{"type":"text","value":", it contains a gentle introduction to projects and software development at the Center. The content of the guide goes beyond the scope of this unit. Certain topics listed briefly in the guide will be discussed in more detail in the following units. To broaden your knowledge on research software development in general we do encourage you to read two other references namely the Turing way "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"2"}]},{"type":"text","value":" and the Sustain 2021 report "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"3"}]},{"type":"text","value":"."}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"To complete Unit 1, you are expected to:"}]}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Read/watch the suggested "},{"type":"element","tag":"a","props":{"href":"http://localhost:3000/internal-training/modules/research-software/teaching_material","rel":["nofollow"]},"children":[{"type":"text","value":"teaching material"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Please send the list of questions to your coach one day before the weekly meetings.."}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Time expected to complete this unit: "},{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"4 hours"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"instructions","depth":3,"text":"Instructions"}]}},"_type":"markdown","_id":"local_fs:modules:Research-software:instructions.md","_source":"local_fs","_file":"modules/Research-software/instructions.md","_extension":"md","plainText":"---\ntitle: Unit 1 Instructions \ntype: reading\norder: 2\n---\n\n### Instructions \n\nAs an employee of the eScience Center a must-read document is the Netherlands eScience Center Guide [1], it contains a gentle introduction to projects and software development at the Center. The content of the guide goes beyond the scope of this unit. Certain topics listed briefly in the guide will be discussed in more detail in the following units. To broaden your knowledge on research software development in general we do encourage you to read two other references namely the Turing way [2] and the Sustain 2021 report [3]. \n\n**To complete Unit 1, you are expected to:** \n\n - Read/watch the suggested [teaching material](http://localhost:3000/internal-training/modules/research-software/teaching_material) \n - Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach. \n - Please send the list of questions to your coach one day before the weekly meetings.. \n\nTime expected to complete this unit: **4 hours**\n"},{"_path":"/modules/research-software/introduction","_dir":"research-software","_draft":false,"_partial":false,"_locale":"","title":"Citing software","description":"","type":"reading","order":2,"body":{"type":"root","children":[{"type":"element","tag":"h2","props":{"id":"citing-software"},"children":[{"type":"text","value":"Citing software"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Software has become a crucial part of scientific research, yet it is not cited or credited as often and as easily as traditional research outputs. However, it is important to properly cite software, for many reasons, among which:"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Understanding Research Fields"}]},{"type":"text","value":": Software is a product of research, and by not citing it, we leave holes in the record of research of progress in those fields."}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Recognition"}]},{"type":"text","value":": Academic researchers at all levels, including students, postdocs, faculty, and staff, should be credited for the software products they develop and contribute to, particularly when those products enable or further research done by others. Non-academic researchers should also be credited for their software work, though the specific forms of credit are different than for academic researchers. Furthermore, citations can be tracked, which allows for more accurate assessment of the software's impact: who uses it, and what projects does it contribute to?"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Discovering Software"}]},{"type":"text","value":": Citations enable the specific software used in a research product to be found. Additional researchers can then use the same software for different purposes, leading to credit for those responsible for the software."}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Reproducibility"}]},{"type":"text","value":": Citation of specific software used is a crucial step in allowing other researchers to reproduce your results, although it is not sufficient. Additional information such as configurations and platform issues are also needed. Accurate information about the software — and its version! — used in your research is necessary for others to obtain and use the same software, making it easier to validate and build upon your research."}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"In this module, we will further illustrate the importance of software citation, and we will demonstrate how scientific software can be cited, and how to facilitate this as the author of scientific software. Here, you will be introduced to the file type "},{"type":"element","tag":"code","props":{"className":[]},"children":[{"type":"text","value":"CITATION.cff"}]},{"type":"text","value":", which was developed especially for this purpose.\n:::"}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"citing-software","depth":2,"text":"Citing software"}]}},"_type":"markdown","_id":"local_fs:modules:Research-software:introduction.md","_source":"local_fs","_file":"modules/Research-software/introduction.md","_extension":"md","plainText":"---\ntitle: Citing software\ntype: reading\norder: 2\n---\n\n## Citing software\n\nSoftware has become a crucial part of scientific research, yet it is not cited or credited as often and as easily as traditional research outputs. However, it is important to properly cite software, for many reasons, among which:\n\n**Understanding Research Fields**: Software is a product of research, and by not citing it, we leave holes in the record of research of progress in those fields.\n\n**Recognition**: Academic researchers at all levels, including students, postdocs, faculty, and staff, should be credited for the software products they develop and contribute to, particularly when those products enable or further research done by others. Non-academic researchers should also be credited for their software work, though the specific forms of credit are different than for academic researchers. Furthermore, citations can be tracked, which allows for more accurate assessment of the software's impact: who uses it, and what projects does it contribute to?\n\n**Discovering Software**: Citations enable the specific software used in a research product to be found. Additional researchers can then use the same software for different purposes, leading to credit for those responsible for the software.\n\n**Reproducibility**: Citation of specific software used is a crucial step in allowing other researchers to reproduce your results, although it is not sufficient. Additional information such as configurations and platform issues are also needed. Accurate information about the software — and its version! — used in your research is necessary for others to obtain and use the same software, making it easier to validate and build upon your research.\n\nIn this module, we will further illustrate the importance of software citation, and we will demonstrate how scientific software can be cited, and how to facilitate this as the author of scientific software. Here, you will be introduced to the file type `CITATION.cff`, which was developed especially for this purpose.\n:::"},{"_path":"/modules/research-software/slides-reasearch-software","_dir":"research-software","_draft":false,"_partial":false,"_locale":"","title":"Research Software","description":"===","type":"slides","order":3,"body":{"type":"root","children":[{"type":"element","tag":"h1","props":{"id":"research-software"},"children":[{"type":"text","value":"Research Software"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"h2","props":{"id":"what-is-research-software"},"children":[{"type":"text","value":"What is research software?"}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Writing research software involves a unique set of challenges and considerations."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Research software development is an iterative process, and adapting to emerging best practices and community standards is crucial for success."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Collaboration and open communication with colleagues and the research community are key to producing high-quality research software."}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Note:"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Here are some best practices to keep in mind when developing research software:"}]},{"type":"element","tag":"ol","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Plan and Design Carefully:"}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Start with a clear project plan and research goals."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Design your software architecture thoughtfully, with modularity and scalability in mind."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Document your software design, including data structures, algorithms, and dependencies."}]}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Version Control:"}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Use a version control system (e.g., Git) to track changes and collaborate with others."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Host your code on platforms like GitHub for easy collaboration and sharing."}]}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Reproducibility:"}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Make your code and research environment as reproducible as possible."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Document dependencies and provide setup instructions."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Consider containerization with tools like Docker to encapsulate the environment."}]}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Documentation:"}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Write clear and comprehensive documentation for your code."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Include comments in the code to explain complex logic or algorithms."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Use tools like Jupyter Notebooks for interactive documentation."}]}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Testing:"}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Implement unit tests, integration tests, and validation tests to ensure your software works correctly."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Use continuous integration (CI) to automate testing and catch errors early."}]}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Performance Optimization:"}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Optimize critical parts of your code for efficiency."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Use profiling tools to identify bottlenecks."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Consider parallelization or GPU acceleration for computationally intensive tasks."}]}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Data Management:"}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Implement data handling and storage best practices, including data cleaning and validation."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Use appropriate data structures and databases for efficient data management."}]}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Licensing:"}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Choose an open-source license that aligns with your project's goals (e.g., MIT, Apache, or GPL)."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Clearly specify the license in your project 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system"}]}]}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"https://softwarearchitecture.tools/#diagramming-tools","rel":["nofollow"]},"children":[{"type":"text","value":"https://softwarearchitecture.tools/#diagramming-tools"}]}]},{"type":"text","value":" \n"},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"h1","props":{"id":"software-engineering-best-practices"},"children":[{"type":"text","value":"Software engineering best practices"}]},{"type":"element","tag":"div","props":{"style":"width: 50%; float: left"},"children":[{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Modular and Scalable Design"}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Version control"}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Coding Standards (Readability/code formatting)"}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Test-Driven Development"}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Code Reviews"}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"continuous Integration (CI) and Continuous Delivery (CD)"}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Bug Tracking and Issue Management"}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Security Practices"}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Performance Optimization"}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"User Experience (UX) and Usability"}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Documentation"}]}]}]},{"type":"element","tag":"div","props":{"style":"width: 50%; float: 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development"}]},{"type":"element","tag":"div","props":{"style":"width: 50%; float: left"},"children":[{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"DevOps foster a culture of collaboration and continuous improvement\n"},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"practices, principles enhance collaboration and communication between software development and IT operations teams"}]}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"The primary objective is to\n"},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"increase the speed, quality, and reliability"}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Continuous integration (CI)"}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Monitoring and Feedback"}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Security"}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Microservices and containers"}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Scalability and Resilience"}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"DevOps toolchain"}]}]}]}]}]},{"type":"element","tag":"div","props":{"style":"width:50%; float: right"},"children":[{"type":"element","tag":"img","props":{"src":"/modules/Research-software/media/STEM-Research-software-writing18.png","width":"100%","style":{"aspectRatio":"1024/621"}},"children":[]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Note:"}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"DevOpsis not a one-size-fits-all approach, and its implementation can vary depending on an organization's specific needs and constraints.The primary objective is to increase the speed, quality, and reliability of software delivery"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"h2","props":{"id":"reusability-of-research-software"},"children":[{"type":"text","value":"Reusability of Research software"}]},{"type":"element","tag":"div","props":{"style":"width: 50%; float: left"},"children":[{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Does following SE best practices guarantee re-usability and user adoption?\n"},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"it should in increase adoption,"}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Beyond FAIR"}]}]}]}]}]},{"type":"element","tag":"div","props":{"style":"width:50%; float: 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potential\n"},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Tutorials/demos/papers"}]}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Dont forget to make the software repository public"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"h2","props":{"id":"takeaway"},"children":[{"type":"text","value":"Takeaway"}]},{"type":"element","tag":"div","props":{"style":"width: 50%; float: left"},"children":[{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Developing a software is\n"},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"a long and tedious process"}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"it worth to defend and sustaining but not at all costs"}]}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Suggestions:\n"},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Don’t fall in Love with your software When needed drop it and use another solution"}]}]}]}]}]},{"type":"element","tag":"div","props":{"style":"width:50%; float: right"},"children":[{"type":"element","tag":"img","props":{"src":"/modules/Research-software/media/STEM-Research-software-writing20.png","width":"100%","style":{"aspectRatio":"275/184"}},"children":[]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"http://www.esciencecenter.nl","rel":["nofollow"]},"children":[{"type":"text","value":"www.esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"mailto:info@esciencecenter.nl"},"children":[{"type":"text","value":"info@esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"020 - 460 47 70"}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"what-is-research-software","depth":2,"text":"What is research software?"},{"id":"research-software-lifecycle","depth":2,"text":"Research Software lifecycle"},{"id":"research-software-lifecycle-1","depth":2,"text":"Research Software lifecycle"},{"id":"research-software-in-all-scientific-disciplines","depth":2,"text":"Research software in all scientific disciplines"},{"id":"research-software-requirements","depth":2,"text":"Research software requirements"},{"id":"re-use-existing-open-source-software","depth":2,"text":"Re-use existing open-Source software"},{"id":"programming","depth":2,"text":"Programming"},{"id":"programming-languages","depth":2,"text":"Programming Languages"},{"id":"software-architecture","depth":2,"text":"Software Architecture"},{"id":"devopsteam-development","depth":2,"text":"DevOpsTeam development"},{"id":"reusability-of-research-software","depth":2,"text":"Reusability of Research software"},{"id":"takeaway","depth":2,"text":"Takeaway"}]}},"_type":"markdown","_id":"local_fs:modules:Research-software:slides-reasearch-software.md","_source":"local_fs","_file":"modules/Research-software/slides-reasearch-software.md","_extension":"md","plainText":"---\ntitle: Research Software \ntype: slides\norder: 3\n---\n\n\n\n# Research Software \n\n===\n\n\n\n## What is research software?\n \n- Writing research software involves a unique set of challenges and considerations. \n- Research software development is an iterative process, and adapting to emerging best practices and community standards is crucial for success. \n- Collaboration and open communication with colleagues and the research community are key to producing high-quality research software.\n\nNote: \n\nHere are some best practices to keep in mind when developing research software:\n1. **Plan and Design Carefully:**\n - Start with a clear project plan and research goals.\n - Design your software architecture thoughtfully, with modularity and scalability in mind.\n - Document your software design, including data structures, algorithms, and dependencies.\n\n2. **Version Control:**\n - Use a version control system (e.g., Git) to track changes and collaborate with others.\n - Host your code on platforms like GitHub for easy collaboration and sharing.\n\n3. **Reproducibility:**\n - Make your code and research environment as reproducible as possible.\n - Document dependencies and provide setup instructions.\n - Consider containerization with tools like Docker to encapsulate the environment.\n\n4. **Documentation:**\n - Write clear and comprehensive documentation for your code.\n - Include comments in the code to explain complex logic or algorithms.\n - Use tools like Jupyter Notebooks for interactive documentation.\n\n5. **Testing:**\n - Implement unit tests, integration tests, and validation tests to ensure your software works correctly.\n - Use continuous integration (CI) to automate testing and catch errors early.\n\n6. **Performance Optimization:**\n - Optimize critical parts of your code for efficiency.\n - Use profiling tools to identify bottlenecks.\n - Consider parallelization or GPU acceleration for computationally intensive tasks.\n\n7. **Data Management:**\n - Implement data handling and storage best practices, including data cleaning and validation.\n - Use appropriate data structures and databases for efficient data management.\n\n8. **Licensing:**\n - Choose an open-source license that aligns with your project's goals (e.g., MIT, Apache, or GPL).\n - Clearly specify the license in your project repository.\n\n9. **Collaboration:**\n - Foster a collaborative environment by welcoming contributions from others.\n - Use platforms like GitHub for issue tracking and pull requests.\n\n10. **Security:**\n - Protect sensitive data and prevent security vulnerabilities.\n - Keep libraries and dependencies up to date to address security issues.\n\n11. **User-Friendly Interfaces:**\n - Develop user-friendly interfaces and command-line options.\n - Consider creating graphical user interfaces (GUIs) for non-technical users.\n\n12. **Community Building:**\n - Engage with the research community, present your work, and seek feedback.\n - Consider publishing your code and datasets in repositories like Zenodo or Figshare.\n\n13. **Citation and DOI:**\n - Assign a DOI to your software, making it citable in research publications.\n - Encourage others to cite your work when they use your software.\n\n14. **Maintenance and Sustainability:**\n - Plan for long-term maintenance and updates.\n - Seek funding or support to ensure the sustainability of your research software.\n\n15. **Ethics and Compliance:**\n - Ensure your software complies with ethical guidelines and legal regulations, especially when dealing with sensitive data.\n\n16. **Peer Review:**\n - Consider submitting your software for peer review through platforms like the Journal of Open Source Software (JOSS).\n\n===\n\n\n\n## Research Software lifecycle \n\n| steps | Authors |\n| :-- | :-- |\n| 1. Conducting Research | Individual / team |\n| **Design phase:** **(2)** Software architecture **(3)** Check open source | Individual / team |\n| **Coding phase:** **(4)** Choose a language **(5)** Separation of Concern (Modularity) **(6)** Apply software patterns | Individual / team |\n| **Testing Phase:** **(7)** Unit testing / Integration / Performance / Security | Individual / team |\n| **Documentation:** **(8)** User documentation/ developer / Tutorials / publication | Individual / team |\n| **Distribution:** **(9)** Choose a licence **(11.** publication **(12)** make you software public | Individual / team |\n\n===\n\n\n\n## Research Software lifecycle \n\n\n
\n\n
\n\n===\n\n\n\n## Research software in all scientific disciplines\n \n
\n\n
\n\n===\n\n\n\n## Research software requirements\n \n
\n\n
\n\n===\n\n\n\n## Re-use existing open-Source software\n\n
\n\n- Available for free*\n- Maintained by volunteers\n- Documentation not always up to date\n\n
\n\n
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\nPhoto by xxxx on xxxx\n
\n \n\nNote: \n\nHow-to\n - **How:** Search engines: searchcode.com\" or \"searchcode.com\n - **Where:** Platforms and directories for open-source software, such as GitHub, GitLab, SourceForge, and Bitbucket\n - **Easy Install**: Package Mangers: make it easy to find and install open-source libraries: pip (Python), npm(Node.js), and RubyGems,(Ruby) …\n - **Under a License**: Apache, MIT, GPL, LGPL, BCD CC*\n - A software license is a legal agreement that define the terms and conditions under which software can be used, distributed, modified, and shared\n\n\nThese licenses serve to protect the rights of the software developer while also defining what users are allowed to do with the software. \nHere are some key components typically found in software licenses:\n\n1. **License Grant:** This section describes what the software license allows users to do. It may specify whether the software can be used, copied, modified, or distributed.\n\n2. **Restrictions:** These are limitations placed on the user, such as restrictions on reverse engineering, decompiling, or using the software for specific purposes.\n\n3. **Usage Terms:** This section may include usage terms, such as the number of users or devices that can use the software, the duration of the license, and whether the license is transferable.\n\n4. **Distribution:** If the software can be distributed, the license may specify the conditions under which it can be shared or sold.\n\n5. **Modification:** If users are allowed to modify the software, the license might specify the terms for sharing those modifications, including whether they must be open source or can remain proprietary.\n\n6. **Attribution:** Some licenses require users to provide attribution to the original software developer in their own work.\n\n7. **Warranty and Liability:** This section outlines the warranty, if any, provided with the software. It may also specify the extent of liability of the software developer for any damages or issues arising from the software's use.\n\n8. **Termination:** The license may include conditions under which it can be terminated, such as non-compliance with the license terms.\n\n9. **Governing Law:** This indicates which jurisdiction's laws will govern the license agreement.\n\nCommon types of software licenses include open source licenses like the MIT License, Apache License, and GNU General Public License (GPL), as well as proprietary licenses used for commercial software. Each type of license comes with its own set of terms and conditions, ranging from highly permissive (e.g., MIT License) to more restrictive (e.g., some proprietary licenses).\n\nIt's essential to carefully read and understand the terms of a software license before using or distributing the software, as violation of the license terms can have legal consequences. Additionally, some licenses are not compatible with one another, so it's crucial to ensure that the software's licenses align with your intended use and distribution.\n\n\n===\n\n\n\n## Programming \n\n\n There are several programming paradigms, which are different approaches to writing code and structuring programs\n\n
\n\n- Procedural Programming\n - Object-Oriented Programming \n - Functional Programming \n - Declarative Programming\n - Logic Programming\n - Concurrent and Parallel Programming\n - Event-Driven Programming\n
\n\n
\n\n
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\nPhoto by xxxx on xxxx\n
\n\nNote: \n\n- Don’t get into religious programming discussion and attitude.\n- Choose based on what fits best\n - Expressiveness\n - Ease of use\n - Eco-systems (libraries, tools for debugging, community)\n- Imperative Programming: In imperative programming, you provide explicit instructions for the computer to follow, specifying the sequence of steps to achieve a particular result. Languages like C, C++, and Pascal are often associated with this paradigm.\n- Procedural Programming: Procedural programming is a subset of imperative programming where code is organized into procedures or functions. It promotes code reusability and maintainability. C and Pascal are examples of languages that support procedural programming.\n- Object-Oriented Programming (OOP): In OOP, programs are structured around objects, which encapsulate data and behavior. Key concepts include classes, inheritance, and polymorphism. Java, C++, and Python are popular OOP languages.\n- Functional Programming (FP): Functional programming treats computation as the evaluation of mathematical functions and avoids changing state and mutable data. It relies heavily on functions as first-class citizens. Languages like Haskell, Lisp, and Erlang are associated with this paradigm.\n- Declarative Programming: In declarative programming, you specify what you want to achieve without detailing how it should be done. SQL, for example, is a declarative language used for querying databases.\n- Logic Programming: Logic programming is based on formal logic and rule-based systems. Prolog is a well-known logic programming language used for symbolic reasoning and knowledge representation.\n- Event-Driven Programming: This paradigm is common in GUI programming and systems where code responds to events or messages. Event-driven languages include JavaScript and Python (with libraries like Tkinter).\nAspect-Oriented Programming (AOP): AOP is a complement to OOP. It focuses on separating cross-cutting concerns (e.g., logging, security) from the main program logic. AspectJ is a popular AOP extension for Java.\n- Concurrent and Parallel Programming: These paradigms address multi-threading, parallel processing, and synchronization. Languages like Go, Erlang, and Java provide features for concurrent and parallel programming.\n- Meta-Programming: Meta-programming is a programming technique where code generates, modifies, or analyzes other code. It's often used in code generation and domain-specific languages.\n- Scripting: Scripting languages are designed for quick, dynamic, and interpreted scripting tasks. Python, Ruby, and - JavaScript are scripting languages commonly used for automation and web development.\n- Array Programming: Array programming emphasizes operations on entire arrays rather than individual elements. Languages like MATLAB and NumPy (Python library) support array programming.\n- Reactive Programming\n\n===\n\n\n\n\n## Programming Languages\n\n\n\n
\n\nDon’t get into religious programming discussion and attitude\\.\n- Choose based on what fits best\n - Expressiveness\n - Ease of use\n - Eco-systems (libraries, tools for debugging, community)\n\n
\n\n
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\n\nNote: \n\n[https://en.wikipedia.org/wiki/Comparison_of_multi-paradigm_programming_languages](https://en.wikipedia.org/wiki/Comparison_of_multi-paradigm_programming_languages) \n\n===\n\n\n\n## Software Architecture\n\n
\n\nDesign\n- Functional vs Non-functional requirements\n- Architecture style\n- Component design\n- Software patterns\n- Scalability\n- Security Performance\n- Deployment and hosting\n- Monitoring and logging\n- Compliance and standards\n- Change management\n- Review and validation\n
\n\n
\n\n
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\n\nNote:\n - Use appropriate Tools:\n - provide features for creating architectural diagrams, defining components, and visualizing the structure of a software system\n\n[https://softwarearchitecture.tools/#diagramming-tools](https://softwarearchitecture.tools/#diagramming-tools)\n\n \n\n===\n\n\n\n# Software engineering best practices\n\n\n
\n\n- Modular and Scalable Design\n- Version control\n- Coding Standards (Readability/code formatting)\n- Test-Driven Development\n- Code Reviews\n- continuous Integration (CI) and Continuous Delivery (CD)\n- Bug Tracking and Issue Management\n- Security Practices\n- Performance Optimization\n- User Experience (UX) and Usability\n- Documentation\n
\n\n
\n\n
\n\n\nNote:\n\nUse of Integrated Development Environment (IDE)\n\nhttps://sourceforge\\.net/directory/integrated\\-development\\-environments\\-ide/mac/\n\n===\n\n\n\n## DevOpsTeam development\n\n
\n\n- DevOps foster a culture of collaboration and continuous improvement\n - practices, principles enhance collaboration and communication between software development and IT operations teams\n- The primary objective is to\n - increase the speed, quality, and reliability\n - Continuous integration (CI)\n - Monitoring and Feedback\n - Security\n - Microservices and containers\n - Scalability and Resilience\n - DevOps toolchain\n
\n
\n\n
\n\nNote:\n\n- DevOpsis not a one-size-fits-all approach, and its implementation can vary depending on an organization's specific needs and constraints.The primary objective is to increase the speed, quality, and reliability of software delivery\n\n===\n\n\n\n## Reusability of Research software\n\n\n
\n\n- Does following SE best practices guarantee re-usability and user adoption?\n - it should in increase adoption,\n - Beyond FAIR\n
\n
\n\n
\n\n\nNote:\n\n- Identify\n - the competition\n - the Unique seling point\n- Reach out potential\n - Tutorials/demos/papers\n- Dont forget to make the software repository public\n\n===\n\n\n\n## Takeaway\n\n
\n\n- Developing a software is\n - a long and tedious process\n - it worth to defend and sustaining but not at all costs\n- Suggestions: \n - Don’t fall in Love with your software When needed drop it and use another solution\n
\n
\n\n
\n\n===\n\n\n\nwww.esciencecenter.nl\n\ninfo@esciencecenter.nl\n \n020 - 460 47 70 \n"},{"_path":"/modules/research-software/teaching_material","_dir":"research-software","_draft":false,"_partial":false,"_locale":"","title":"Teaching Material","description":"","type":"exercise","order":3,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"teaching-material"},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Teaching Material"}]}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Netherlands eScience Center Guide "},{"type":"element","tag":"a","props":{"href":"https://guide.esciencecenter.nl/#/","rel":["nofollow"]},"children":[{"type":"text","value":"eScience Center Guide"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"The Turing way – Chapters: reproducible research and project design "},{"type":"element","tag":"a","props":{"href":"https://the-turing-way.netlify.app/welcome.html","rel":["nofollow"]},"children":[{"type":"text","value":"online Book"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Sustain 2021 "},{"type":"element","tag":"a","props":{"href":"https://sustainoss.org/assets/pdf/Sustain-In-2021-Event-Report.pdf","rel":["nofollow"]},"children":[{"type":"text","value":"Report 2021"}]}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"teaching-material","depth":3,"text":"Teaching Material"}]}},"_type":"markdown","_id":"local_fs:modules:Research-software:teaching_material.md","_source":"local_fs","_file":"modules/Research-software/teaching_material.md","_extension":"md","plainText":"---\ntitle: Teaching Material \ntype: exercise\norder: 3\n---\n\n### **Teaching Material**\n\n- Netherlands eScience Center Guide [eScience Center Guide](https://guide.esciencecenter.nl/#/)\n- The Turing way – Chapters: reproducible research and project design [online Book](https://the-turing-way.netlify.app/welcome.html)\n- Sustain 2021 [Report 2021](https://sustainoss.org/assets/pdf/Sustain-In-2021-Event-Report.pdf)\n\n\n"},{"_path":"/modules/software-archtecture-design/context","_dir":"software-archtecture-design","_draft":false,"_partial":false,"_locale":"","title":"Background unit 4","description":"","type":"reading","order":1,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"background"},"children":[{"type":"text","value":"Background"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"As the size of software systems increases, the algorithms and data structures introduced in Unit 4 are no longer the major design problems. When systems are constructed from many components, the organization of the overall system—the software architecture—is the new design challenge. Software architecture design has been addressed in several ways including informal diagrams and descriptive terms, module interconnection languages, templates and frameworks for systems that serve the needs of specific domains, and formal models of component integration mechanisms."}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"background","depth":3,"text":"Background"}]}},"_type":"markdown","_id":"local_fs:modules:Software-archtecture-design:context.md","_source":"local_fs","_file":"modules/Software-archtecture-design/context.md","_extension":"md","plainText":"---\ntitle: Background unit 4 \ntype: reading\norder: 1 \n---\n\n### Background \nAs the size of software systems increases, the algorithms and data structures introduced in Unit 4 are no longer the major design problems. When systems are constructed from many components, the organization of the overall system—the software architecture—is the new design challenge. Software architecture design has been addressed in several ways including informal diagrams and descriptive terms, module interconnection languages, templates and frameworks for systems that serve the needs of specific domains, and formal models of component integration mechanisms.\n"},{"_path":"/modules/software-archtecture-design/further_reading","_dir":"software-archtecture-design","_draft":false,"_partial":false,"_locale":"","title":"Further Reading","description":"","type":"reading","order":6,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"further-reading"},"children":[{"type":"text","value":"Further Reading"}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"further-reading","depth":3,"text":"Further Reading"}]}},"_type":"markdown","_id":"local_fs:modules:Software-archtecture-design:further_reading.md","_source":"local_fs","_file":"modules/Software-archtecture-design/further_reading.md","_extension":"md","plainText":"---\ntitle: Further Reading \ntype: reading\norder: 6\n---\n\n### Further Reading\n"},{"_path":"/modules/software-archtecture-design","_dir":"modules","_draft":false,"_partial":false,"_locale":"","title":"Software architecture design","description":"Photo by TODO on Unsplash","category":"Module1","order":4,"author":"eScience Center","abstract":null,"thumbnail":"software-architecture.jpeg","visibility":"visible","body":{"type":"root","children":[{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Photo by "},{"type":"element","tag":"a","props":{"href":""},"children":[{"type":"text","value":"TODO"}]},{"type":"text","value":" on "},{"type":"element","tag":"a","props":{"href":"https://csharp-station.com/Tutorial/CSharp/Lesson19"},"children":[{"type":"text","value":"Unsplash"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:Software-archtecture-design:index.md","_source":"local_fs","_file":"modules/Software-archtecture-design/index.md","_extension":"md","plainText":"---\ntitle: Software architecture design\ncategory: Module1\norder: 4 \nauthor: eScience Center\nabstract: \nthumbnail: \"software-architecture.jpeg\"\nvisibility: visible\n---\n\n\nPhoto by TODO on Unsplash\n \n \n"},{"_path":"/modules/software-archtecture-design/info","_dir":"software-archtecture-design","_draft":false,"_partial":false,"_locale":"","title":"Learning objectives","description":"after completing unit 4 you will have acquired a basic understanding of the various data structures and will be able to make an informed decision about the data structure you will be using in your projects.","type":"info","order":0,"body":{"type":"root","children":[{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"after completing unit 4 you will have acquired a basic understanding of the various data structures and will be able to make an informed decision about the data structure you will be using in your projects."}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Understand the Role of Software Architecture in System Design: Learners will be able to explain the importance of software architecture in designing large-scale systems."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Identify and Compare Software Architecture Approaches: Learners will be able to describe and differentiate between various methods of software architecture design"}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Apply Architectural Principles to Component-Based Systems: Learners will be able to refelct on high-level architecture for a system composed of multiple components"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:Software-archtecture-design:info.md","_source":"local_fs","_file":"modules/Software-archtecture-design/info.md","_extension":"md","plainText":"---\ntitle: Learning objectives\ntype: info\norder: 0\n---\nafter completing unit 4 you will have acquired a basic understanding of the various data structures and will be able to make an informed decision about the data structure you will be using in your projects.\n\n- Understand the Role of Software Architecture in System Design: Learners will be able to explain the importance of software architecture in designing large-scale systems.\n\n- Identify and Compare Software Architecture Approaches: Learners will be able to describe and differentiate between various methods of software architecture design\n\n- Apply Architectural Principles to Component-Based Systems: Learners will be able to refelct on high-level architecture for a system composed of multiple components\n"},{"_path":"/modules/software-archtecture-design/instructions","_dir":"software-archtecture-design","_draft":false,"_partial":false,"_locale":"","title":"Unit 4 Instructions","description":"","type":"reading","order":2,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"instructions"},"children":[{"type":"text","value":"Instructions"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"For Unit 4, we selected three references which will help you to acquire a basic understanding of both Data structures and Algorithms. "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"1"}]},{"type":"text","value":" is a 5-hour course given by teamtreehouse.com and contains lectures and hands-on sessions. This will be the main material to study for unit 4."}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"We provide extra references for those who like to read more in-depth material on the topic of Unit 3."}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"To complete Unit 4, you are expected to:"}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Watch the suggested teaching material."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Prepare a list of questions and a short reflection on the suggested material. 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This will be the main material to study for unit 4. \n\nWe provide extra references for those who like to read more in-depth material on the topic of Unit 3. \n\nTo complete Unit 4, you are expected to: \n\n - Watch the suggested teaching material. \n\n - Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach. \n\n - Please send the list of questions to your coach one day before. \n\nImportant: In this unit the proposed material [1] contains some hands-on assignments. It is crucial to pause the video and perform the hands-on work on your laptop. \nTime expected to complete this unit: **4 hours**\n"},{"_path":"/modules/software-archtecture-design/slides-software-archtecture-design","_dir":"software-archtecture-design","_draft":false,"_partial":false,"_locale":"","title":"Software Architecture Design","description":"===","type":"slides","order":3,"body":{"type":"root","children":[{"type":"element","tag":"h1","props":{"id":"software-architecture-design"},"children":[{"type":"text","value":"Software Architecture Design"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"h2","props":{"id":"software-architecture-design"},"children":[{"type":"text","value":"Software Architecture Design "},{"type":"element","tag":"todo","props":{},"children":[]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"http://www.esciencecenter.nl","rel":["nofollow"]},"children":[{"type":"text","value":"www.esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"mailto:info@esciencecenter.nl"},"children":[{"type":"text","value":"info@esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"020 - 460 47 70"}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"software-architecture-design","depth":2,"text":"Software Architecture Design "}]}},"_type":"markdown","_id":"local_fs:modules:Software-archtecture-design:slides-Software-archtecture-design.md","_source":"local_fs","_file":"modules/Software-archtecture-design/slides-Software-archtecture-design.md","_extension":"md","plainText":"---\ntitle: Software Architecture Design \ntype: slides\norder: 3\n---\n\n\n\n# Software Architecture Design\n\n===\n\n\n\n## Software Architecture Design \n \n\n===\n\n\n\nwww.esciencecenter.nl\n\ninfo@esciencecenter.nl\n \n020 - 460 47 70 \n"},{"_path":"/modules/software-archtecture-design/teaching_material","_dir":"software-archtecture-design","_draft":false,"_partial":false,"_locale":"","title":"Teaching Material","description":"","type":"exercise","order":5,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"teaching-material"},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Teaching Material"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Data structure, Algorithms, sorting & searching, "},{"type":"element","tag":"a","props":{"href":""},"children":[{"type":"text","value":"freeCodeCamp.org"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"teaching-material","depth":3,"text":"Teaching Material"}]}},"_type":"markdown","_id":"local_fs:modules:Software-archtecture-design:teaching_material.md","_source":"local_fs","_file":"modules/Software-archtecture-design/teaching_material.md","_extension":"md","plainText":"---\ntitle: Teaching Material \ntype: exercise\norder: 5\n---\n\n### **Teaching Material**\n\nData structure, Algorithms, sorting & searching, [freeCodeCamp.org]()\n"},{"_path":"/modules/software-testing/context","_dir":"software-testing","_draft":false,"_partial":false,"_locale":"","title":"Background unit 2","description":"","type":"reading","order":1,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"background"},"children":[{"type":"text","value":"Background"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Software testing is a method of determining whether the actual software product meets the expected requirements and ensuring that the software product is free of defects. It entails running software/system components through their pace using manual or automated tools to evaluate one or more properties of interest like security"}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"background","depth":3,"text":"Background"}]}},"_type":"markdown","_id":"local_fs:modules:Software-testing:context.md","_source":"local_fs","_file":"modules/Software-testing/context.md","_extension":"md","plainText":"---\ntitle: Background unit 2 \ntype: reading\norder: 1\n---\n\n### Background \nSoftware testing is a method of determining whether the actual software product meets the expected requirements and ensuring that the software product is free of defects. It entails running software/system components through their pace using manual or automated tools to evaluate one or more properties of interest like security\n"},{"_path":"/modules/software-testing/further_reading","_dir":"software-testing","_draft":false,"_partial":false,"_locale":"","title":"Further Reading","description":"","type":"reading","order":5,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"further-reading"},"children":[{"type":"text","value":"Further Reading"}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"further-reading","depth":3,"text":"Further Reading"}]}},"_type":"markdown","_id":"local_fs:modules:Software-testing:further_reading.md","_source":"local_fs","_file":"modules/Software-testing/further_reading.md","_extension":"md","plainText":"---\ntitle: Further Reading \ntype: reading\norder: 5\n---\n\n### Further Reading\n\n"},{"_path":"/modules/software-testing","_dir":"modules","_draft":false,"_partial":false,"_locale":"","title":"Software testing","description":"Photo by TODO on Unsplash","category":"Module2","order":2,"author":"eScience Center","abstract":null,"thumbnail":"software-testing1.jpg","visibility":"visible","body":{"type":"root","children":[{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Photo by "},{"type":"element","tag":"a","props":{"href":""},"children":[{"type":"text","value":"TODO"}]},{"type":"text","value":" on "},{"type":"element","tag":"a","props":{"href":"https://csharp-station.com/Tutorial/CSharp/Lesson19"},"children":[{"type":"text","value":"Unsplash"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:Software-testing:index.md","_source":"local_fs","_file":"modules/Software-testing/index.md","_extension":"md","plainText":"---\ntitle: Software testing\ncategory: Module2\norder: 2 \nauthor: eScience Center\nabstract: \nthumbnail: \"software-testing1.jpg\"\nvisibility: visible\n---\n\n\nPhoto by TODO on Unsplash\n \n \n"},{"_path":"/modules/software-testing/info","_dir":"software-testing","_draft":false,"_partial":false,"_locale":"","title":"Learning objectives","description":"","type":"info","order":0,"body":{"type":"root","children":[{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Understand the Role of Software Testing in Development: Learners will be able to explain the importance of software testing in enhancing productivity and improving code quality."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Apply Foundational Testing Practices in Research Projects: Learners will be able to implement basic testing techniques safely and effectively in their research projects."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Appreciate the Professional Perspective on Software Testing: Learners will be able to reflect on the broader scope and significance of software testing as a professional discipline."}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:Software-testing:info.md","_source":"local_fs","_file":"modules/Software-testing/info.md","_extension":"md","plainText":"---\ntitle: Learning objectives\ntype: info\norder: 0\n---\n\n- Understand the Role of Software Testing in Development: Learners will be able to explain the importance of software testing in enhancing productivity and improving code quality.\n\n- Apply Foundational Testing Practices in Research Projects: Learners will be able to implement basic testing techniques safely and effectively in their research projects.\n\n- Appreciate the Professional Perspective on Software Testing: Learners will be able to reflect on the broader scope and significance of software testing as a professional discipline.\n"},{"_path":"/modules/software-testing/instructions","_dir":"software-testing","_draft":false,"_partial":false,"_locale":"","title":"Unit 2 Instructions","description":"","type":"reading","order":2,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"instructions"},"children":[{"type":"text","value":"Instructions"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"For Unit 2, we selected a couple of references which will help to motivate you to see the importance of software testing and its impact on your productivity and code quality. "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"1"}]},{"type":"text","value":" Effective unit testing by Elliotte Rusty is a keynote at Devoxx 2017 and focuses on the “why” aspects of testing, it is more on how you improve the development process by testing. "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"2"}]},{"type":"text","value":" points to the Testing Chapter of the Turing way which convers enough details on the topic to let you start with safely with testing in your research projects. Finally, "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"3"}]},{"type":"text","value":" is Open Lecture by James Bach on software testing which is more provocative, and approach testing from practical point of view, it tells the story from the professional testers point of view, it highlights that software testing is not just a matter of writing a few unit tests but it is a profession it itself is, never thought of that way before listening to this talk might be beyond the scope of this unit."}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"To complete Unit 2, you are expected to:"}]}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Read/watch the suggested "},{"type":"element","tag":"a","props":{"href":"http://localhost:3000/internal-training/modules/Software-testing/teaching_material","rel":["nofollow"]},"children":[{"type":"text","value":"teaching material"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Please send the list of questions to your coach one day before the weekly meetings.."}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Time expected to complete this unit: "},{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"4 hours"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"instructions","depth":3,"text":"Instructions"}]}},"_type":"markdown","_id":"local_fs:modules:Software-testing:instructions.md","_source":"local_fs","_file":"modules/Software-testing/instructions.md","_extension":"md","plainText":"---\ntitle: Unit 2 Instructions \ntype: reading\norder: 2\n---\n\n### Instructions \n\nFor Unit 2, we selected a couple of references which will help to motivate you to see the importance of software testing and its impact on your productivity and code quality. [1] Effective unit testing by Elliotte Rusty is a keynote at Devoxx 2017 and focuses on the “why” aspects of testing, it is more on how you improve the development process by testing. [2] points to the Testing Chapter of the Turing way which convers enough details on the topic to let you start with safely with testing in your research projects. Finally, [3] is Open Lecture by James Bach on software testing which is more provocative, and approach testing from practical point of view, it tells the story from the professional testers point of view, it highlights that software testing is not just a matter of writing a few unit tests but it is a profession it itself is, never thought of that way before listening to this talk might be beyond the scope of this unit. \n\n \n**To complete Unit 2, you are expected to:** \n\n - Read/watch the suggested [teaching material](http://localhost:3000/internal-training/modules/Software-testing/teaching_material) \n - Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach. \n - Please send the list of questions to your coach one day before the weekly meetings.. \n\nTime expected to complete this unit: **4 hours**\n"},{"_path":"/modules/software-testing/slides-software-testing","_dir":"software-testing","_draft":false,"_partial":false,"_locale":"","title":"Software-testing","description":"===","type":"slides","order":3,"body":{"type":"root","children":[{"type":"element","tag":"h1","props":{"id":"software-testing"},"children":[{"type":"text","value":"Software-testing"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"h2","props":{"id":"software-testing"},"children":[{"type":"text","value":"Software-testing "},{"type":"element","tag":"todo","props":{},"children":[]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"http://www.esciencecenter.nl","rel":["nofollow"]},"children":[{"type":"text","value":"www.esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"mailto:info@esciencecenter.nl"},"children":[{"type":"text","value":"info@esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"020 - 460 47 70"}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"software-testing","depth":2,"text":"Software-testing "}]}},"_type":"markdown","_id":"local_fs:modules:Software-testing:slides-software-testing.md","_source":"local_fs","_file":"modules/Software-testing/slides-software-testing.md","_extension":"md","plainText":"---\ntitle: Software-testing \ntype: slides\norder: 3\n---\n\n\n\n# Software-testing\n\n===\n\n\n\n## Software-testing \n \n\n===\n\n\n\nwww.esciencecenter.nl\n\ninfo@esciencecenter.nl\n \n020 - 460 47 70 \n"},{"_path":"/modules/software-testing/teaching_material","_dir":"software-testing","_draft":false,"_partial":false,"_locale":"","title":"Teaching Material","description":"","type":"exercise","order":3,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"teaching-material"},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Teaching Material"}]}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Effective unit testing by Elliotte Rusty "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=fr1E9aVnBxw","rel":["nofollow"]},"children":[{"type":"text","value":"keyTalk@Devoxx2017"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Open Lecture by James Bach on Software Testing "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=ILkT_HV9DVU","rel":["nofollow"]},"children":[{"type":"text","value":"online Lecture"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"The Turing way: Testing chapter"},{"type":"element","tag":"a","props":{"href":"https://the-turing-way.netlify.app/reproducible-research/testing.html","rel":["nofollow"]},"children":[{"type":"text","value":"Online book"}]}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"teaching-material","depth":3,"text":"Teaching Material"}]}},"_type":"markdown","_id":"local_fs:modules:Software-testing:teaching_material.md","_source":"local_fs","_file":"modules/Software-testing/teaching_material.md","_extension":"md","plainText":"---\ntitle: Teaching Material \ntype: exercise\norder: 3\n---\n\n### **Teaching Material**\n\n- Effective unit testing by Elliotte Rusty [keyTalk@Devoxx2017](https://www.youtube.com/watch?v=fr1E9aVnBxw)\n- Open Lecture by James Bach on Software Testing [online Lecture](https://www.youtube.com/watch?v=ILkT_HV9DVU)\n- The Turing way: Testing chapter[Online book](https://the-turing-way.netlify.app/reproducible-research/testing.html)\n"},{"_path":"/package-lock","_dir":"","_draft":false,"_partial":false,"_locale":"","name":"internal-training","lockfileVersion":3,"requires":true,"packages":{},"_id":"local_fs:package-lock.json","_type":"json","title":"Package Lock","_source":"local_fs","_file":"package-lock.json","_extension":"json"},{"_path":"/readme","_dir":"","_draft":false,"_partial":false,"_locale":"","title":"NEBULA-content-template","description":"This template repository can be used to create an easily maintainable, version-controllable, web-based lesson collection to be deployed with the NEBULA framework.","body":{"type":"root","children":[{"type":"element","tag":"h1","props":{"id":"nebula-content-template"},"children":[{"type":"text","value":"NEBULA-content-template"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"This template repository can be used to create an easily maintainable, version-controllable, web-based lesson collection to be deployed with the "},{"type":"element","tag":"a","props":{"href":"https://github.com/esciencecenter-digital-skills/NEBULA","rel":["nofollow"]},"children":[{"type":"text","value":"NEBULA framework"}]},{"type":"text","value":"."}]},{"type":"element","tag":"h2","props":{"id":"repo-instantiation"},"children":[{"type":"text","value":"Repo instantiation"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"To create a custom-made lesson repository, click the "},{"type":"element","tag":"code","props":{"className":[]},"children":[{"type":"text","value":"Use this template"}]},{"type":"text","value":" button located at the top right of this page."}]},{"type":"element","tag":"h2","props":{"id":"configure-github-pages"},"children":[{"type":"text","value":"Configure GitHub Pages"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"After instantiation, you need to set up your repo's GitHub Pages. Follow these steps:"}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Go to "},{"type":"element","tag":"code","props":{"className":[]},"children":[{"type":"text","value":"Settings"}]},{"type":"text","value":" (located on the top toolbar), and then click on "},{"type":"element","tag":"code","props":{"className":[]},"children":[{"type":"text","value":"Pages"}]},{"type":"text","value":"."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Under the "},{"type":"element","tag":"code","props":{"className":[]},"children":[{"type":"text","value":"Branch"}]},{"type":"text","value":" option, select the "},{"type":"element","tag":"code","props":{"className":[]},"children":[{"type":"text","value":"gh-pages"}]},{"type":"text","value":" branch and then click "},{"type":"element","tag":"code","props":{"className":[]},"children":[{"type":"text","value":"Save"}]},{"type":"text","value":". Use the "},{"type":"element","tag":"code","props":{"className":[]},"children":[{"type":"text","value":"/root"}]},{"type":"text","value":" folder as the default."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Return to your main repository page."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"In the "},{"type":"element","tag":"code","props":{"className":[]},"children":[{"type":"text","value":"About"}]},{"type":"text","value":" section of your repository details, find the "},{"type":"element","tag":"code","props":{"className":[]},"children":[{"type":"text","value":"Website"}]},{"type":"text","value":" field and select "},{"type":"element","tag":"code","props":{"className":[]},"children":[{"type":"text","value":"Use your GitHub Pages website"}]},{"type":"text","value":"."}]}]},{"type":"element","tag":"h2","props":{"id":"add-the-title-of-your-lesson-and-additional-sections"},"children":[{"type":"text","value":"Add the title of your lesson and additional sections"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"This can be configured through the "},{"type":"element","tag":"code","props":{"className":[]},"children":[{"type":"text","value":"config.json"}]},{"type":"text","value":" file. Below is an example of its contents:"}]},{"type":"element","tag":"pre","props":{"code":"{\n \"publicProps\": {\n \"title\": \"Add a title for your lesson/project\",\n \"baseURL\": \"NEBULA-content-template\",\n \"repoName\": \"NEBULA-content-template\",\n \"repoOwner\": \"esciencecenter-digital-skills\",\n \"organization\": \"Netherlands eScience Center\",\n \"categoryOrder\": [\"Category1\", \"Category2\"]\n }\n}\n"},"children":[{"type":"element","tag":"code","props":{"__ignoreMap":""},"children":[{"type":"text","value":"{\n \"publicProps\": {\n \"title\": \"Add a title for your lesson/project\",\n \"baseURL\": \"NEBULA-content-template\",\n \"repoName\": \"NEBULA-content-template\",\n \"repoOwner\": \"esciencecenter-digital-skills\",\n \"organization\": \"Netherlands eScience Center\",\n \"categoryOrder\": [\"Category1\", \"Category2\"]\n }\n}\n"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"You can modify the "},{"type":"element","tag":"code","props":{"className":[]},"children":[{"type":"text","value":"\"title\""}]},{"type":"text","value":" field to reflect your specific topic and add new sections to your lesson under "},{"type":"element","tag":"code","props":{"className":[]},"children":[{"type":"text","value":"\"categoryOrder\""}]},{"type":"text","value":"."}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"The "},{"type":"element","tag":"code","props":{"className":[]},"children":[{"type":"text","value":"\"repoName\""}]},{"type":"text","value":" and "},{"type":"element","tag":"code","props":{"className":[]},"children":[{"type":"text","value":"\"baseURL\""}]},{"type":"text","value":" fields are automatically updated to the name of your new repository using the "},{"type":"element","tag":"a","props":{"href":"https://github.com/esciencecenter-digital-skills/NEBULA-content-template/blob/main/.github/workflows/generate_config.yml","rel":["nofollow"]},"children":[{"type":"text","value":"generate_config.yml"}]},{"type":"text","value":" file. The corresponding workflow is triggered only once upon repository instantiation and is subsequently disabled."}]},{"type":"element","tag":"h2","props":{"id":"adding-new-modules"},"children":[{"type":"text","value":"Adding new modules"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"This repository includes dummy model modules as templates that you can follow to create your own modules. Please, follow the recommended formats and file extensions.\nSee also "},{"type":"element","tag":"a","props":{"href":"https://github.com/esciencecenter-digital-skills/NEBULA-docs","rel":["nofollow"]},"children":[{"type":"text","value":"NEBULA-docs"}]},{"type":"text","value":" for information on how to create new modules."}]},{"type":"element","tag":"h2","props":{"id":"suggestions-and-further-info"},"children":[{"type":"text","value":"Suggestions and further info"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Suggestions are always welcome.\nFor this and any other issues, we invite you contribute to the project by creating "},{"type":"element","tag":"code","props":{"className":[]},"children":[{"type":"text","value":"Issues"}]},{"type":"text","value":" and "},{"type":"element","tag":"code","props":{"className":[]},"children":[{"type":"text","value":"Pull requests"}]},{"type":"text","value":".\nIf needed, you can also contact us directly:"}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Carlos M. R. Rocha: "},{"type":"element","tag":"a","props":{"href":"mailto:c.rocha@esciencecenter.nl"},"children":[{"type":"text","value":"c.rocha@esciencecenter.nl"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Jaro Camphuijsen: "},{"type":"element","tag":"a","props":{"href":"mailto:j.camphuijsen@esciencecenter.nl"},"children":[{"type":"text","value":"j.camphuijsen@esciencecenter.nl"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Robin Richardson: "},{"type":"element","tag":"a","props":{"href":"mailto:r.richardson@esciencecenter.nl"},"children":[{"type":"text","value":"r.richardson@esciencecenter.nl"}]}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"repo-instantiation","depth":2,"text":"Repo instantiation"},{"id":"configure-github-pages","depth":2,"text":"Configure GitHub Pages"},{"id":"add-the-title-of-your-lesson-and-additional-sections","depth":2,"text":"Add the title of your lesson and additional sections"},{"id":"adding-new-modules","depth":2,"text":"Adding new modules"},{"id":"suggestions-and-further-info","depth":2,"text":"Suggestions and further info"}]}},"_type":"markdown","_id":"local_fs:README.md","_source":"local_fs","_file":"README.md","_extension":"md","plainText":"# NEBULA-content-template\nThis template repository can be used to create an easily maintainable, version-controllable, web-based lesson collection to be deployed with the [NEBULA framework](https://github.com/esciencecenter-digital-skills/NEBULA).\n\n## Repo instantiation\nTo create a custom-made lesson repository, click the `Use this template` button located at the top right of this page.\n\n## Configure GitHub Pages\nAfter instantiation, you need to set up your repo's GitHub Pages. Follow these steps:\n- Go to `Settings` (located on the top toolbar), and then click on `Pages`.\n- Under the `Branch` option, select the `gh-pages` branch and then click `Save`. Use the `/root` folder as the default.\n- Return to your main repository page.\n- In the `About` section of your repository details, find the `Website` field and select `Use your GitHub Pages website`.\n\n## Add the title of your lesson and additional sections\nThis can be configured through the `config.json` file. Below is an example of its contents:\n```\n{\n \"publicProps\": {\n \"title\": \"Add a title for your lesson/project\",\n \"baseURL\": \"NEBULA-content-template\",\n \"repoName\": \"NEBULA-content-template\",\n \"repoOwner\": \"esciencecenter-digital-skills\",\n \"organization\": \"Netherlands eScience Center\",\n \"categoryOrder\": [\"Category1\", \"Category2\"]\n }\n}\n```\nYou can modify the `\"title\"` field to reflect your specific topic and add new sections to your lesson under `\"categoryOrder\"`.\n\nThe `\"repoName\"` and `\"baseURL\"` fields are automatically updated to the name of your new repository using the [generate_config.yml](https://github.com/esciencecenter-digital-skills/NEBULA-content-template/blob/main/.github/workflows/generate_config.yml) file. The corresponding workflow is triggered only once upon repository instantiation and is subsequently disabled.\n\n## Adding new modules\nThis repository includes dummy model modules as templates that you can follow to create your own modules. Please, follow the recommended formats and file extensions.\nSee also [NEBULA-docs](https://github.com/esciencecenter-digital-skills/NEBULA-docs) for information on how to create new modules.\n\n## Suggestions and further info\nSuggestions are always welcome.\nFor this and any other issues, we invite you contribute to the project by creating `Issues` and `Pull requests`.\nIf needed, you can also contact us directly:\n- Carlos M. R. Rocha: c.rocha@esciencecenter.nl\n- Jaro Camphuijsen: j.camphuijsen@esciencecenter.nl\n- Robin Richardson: r.richardson@esciencecenter.nl\n\n\n"}],"navigation":[{"title":"Config","_path":"/config"},{"title":"Hello world","_path":"/"},{"title":"LICENSE","_path":"/license"},{"title":"Main","_path":"/main","children":[{"title":"About","_path":"/main/about"},{"title":"Contribute","_path":"/main/contribute"}]},{"title":"Modules","_path":"/modules","children":[{"title":"API design","_path":"/modules/api-design","children":[{"title":"Background unit 6","_path":"/modules/api-design/context"},{"title":"Further Reading","_path":"/modules/api-design/further_reading"},{"title":"API design","_path":"/modules/api-design"},{"title":"Learning objectives","_path":"/modules/api-design/info"},{"title":"Unit 6 Instructions","_path":"/modules/api-design/instructions"},{"title":"API design","_path":"/modules/api-design/slides-api-design"},{"title":"Teaching 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objectives","_path":"/modules/contribution-to-open-source-software/info"},{"title":"Unit 4 Instructions","_path":"/modules/contribution-to-open-source-software/instructions"},{"title":"Contributing to Open Source software","_path":"/modules/contribution-to-open-source-software/slides-contributing-to-open-source-software"},{"title":"Teaching Material","_path":"/modules/contribution-to-open-source-software/teaching_material"}]},{"title":"Data processing and data storage","_path":"/modules/data-processing-and-data-storage","children":[{"title":"Background unit 7","_path":"/modules/data-processing-and-data-storage/context"},{"title":"Further Reading","_path":"/modules/data-processing-and-data-storage/further_reading"},{"title":"Data processing and data storage","_path":"/modules/data-processing-and-data-storage"},{"title":"Learning objectives","_path":"/modules/data-processing-and-data-storage/info"},{"title":"Unit 7 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Material","_path":"/modules/github-the-basics/teaching_material"}]},{"title":"Human aspects of Software Engineering","_path":"/modules/human-aspects-of-software-engineering","children":[{"title":"Background unit 2","_path":"/modules/human-aspects-of-software-engineering/context"},{"title":"Further Reading","_path":"/modules/human-aspects-of-software-engineering/further_reading"},{"title":"Human aspects of Software Engineering","_path":"/modules/human-aspects-of-software-engineering"},{"title":"Learning objectives","_path":"/modules/human-aspects-of-software-engineering/info"},{"title":"Unit 2 Instructions","_path":"/modules/human-aspects-of-software-engineering/instructions"},{"title":"human aspects of software engineering","_path":"/modules/human-aspects-of-software-engineering/slides-human-aspects-of-software-engineering"},{"title":"Teaching 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libraries","_path":"/modules/oss-libraries","children":[{"title":"Background unit 1","_path":"/modules/oss-libraries/context"},{"title":"Further Reading","_path":"/modules/oss-libraries/further_reading"},{"title":"OSS libraries","_path":"/modules/oss-libraries"},{"title":"Learning objectives","_path":"/modules/oss-libraries/info"},{"title":"Unit 1 Instructions","_path":"/modules/oss-libraries/instructions"},{"title":"Using OSS libraries","_path":"/modules/oss-libraries/slides-oos-libraries"},{"title":"Teaching Material","_path":"/modules/oss-libraries/teaching_material"}]},{"title":"Performance optimization and parallelization","_path":"/modules/performance-optimization-and-parallelization","children":[{"title":"Background unit 5","_path":"/modules/performance-optimization-and-parallelization/context"},{"title":"Further Reading","_path":"/modules/performance-optimization-and-parallelization/further_reading"},{"title":"Performance optimization and 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apply to any image files in the "},{"type":"element","tag":"code","props":{"className":[]},"children":[{"type":"text","value":"modules"}]},{"type":"text","value":" folder or its subfolders.\nImage files are files with "},{"type":"element","tag":"code","props":{"className":[]},"children":[{"type":"text","value":".png"}]},{"type":"text","value":", "},{"type":"element","tag":"code","props":{"className":[]},"children":[{"type":"text","value":".jpg"}]},{"type":"text","value":", "},{"type":"element","tag":"code","props":{"className":[]},"children":[{"type":"text","value":".svg"}]},{"type":"text","value":", or "},{"type":"element","tag":"code","props":{"className":[]},"children":[{"type":"text","value":".gif"}]},{"type":"text","value":" extensions."}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:LICENSE.md","_source":"local_fs","_file":"LICENSE.md","_extension":"md","plainText":"\"Creative
The content of the `modules/` folder of this project is licensed under a Creative Commons Attribution 4.0 International License.\n\nThis license does not apply to any image files in the `modules` folder or its subfolders.\nImage files are files with `.png`, `.jpg`, `.svg`, or `.gif` extensions.\n"},{"_path":"/main/about","_dir":"main","_draft":false,"_partial":false,"_locale":"","title":"About","description":"","body":{"type":"root","children":[{"type":"element","tag":"h2","props":{"id":"about-this-lessonproject"},"children":[{"type":"text","value":"About this lesson/project"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Provide details about the project and lesson."}]},{"type":"element","tag":"h2","props":{"id":"target-audience"},"children":[{"type":"text","value":"Target audience"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Define target audience for this material."}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"about-this-lessonproject","depth":2,"text":"About this lesson/project"},{"id":"target-audience","depth":2,"text":"Target audience"}]}},"_type":"markdown","_id":"local_fs:main:about.md","_source":"local_fs","_file":"main/about.md","_extension":"md","plainText":"---\ntitle: About\n---\n\n## About this lesson/project\n\nProvide details about the project and lesson.\n\n## Target audience\n\nDefine target audience for this material."},{"_path":"/main/contribute","_dir":"main","_draft":false,"_partial":false,"_locale":"","title":"Contribute","description":"","body":{"type":"root","children":[{"type":"element","tag":"h2","props":{"id":"contributing-to-this-lesson"},"children":[{"type":"text","value":"Contributing to this lesson"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Add contributing guidelines for you project."}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"contributing-to-this-lesson","depth":2,"text":"Contributing to this lesson"}]}},"_type":"markdown","_id":"local_fs:main:contribute.md","_source":"local_fs","_file":"main/contribute.md","_extension":"md","plainText":"---\ntitle: Contribute\n---\n\n## Contributing to this lesson\n\nAdd contributing guidelines for you project."},{"_path":"/modules/api-design/context","_dir":"api-design","_draft":false,"_partial":false,"_locale":"","title":"Background unit 6","description":"","type":"reading","order":1,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"background"},"children":[{"type":"text","value":"Background"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"API design refers to the process of developing application programming interfaces (APIs) that expose data and application functionality for use by developers and users. APIs are important to modern organizations, adding new capabilities to everything from their operations/products to their partnership strategies. It is no longer a stretch to say that most organizations do not ask whether to engage in API programs, but how to do so” "},{"type":"element","tag":"a","props":{"href":""},"children":[{"type":"text","value":"3"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"background","depth":3,"text":"Background"}]}},"_type":"markdown","_id":"local_fs:modules:API-design:context.md","_source":"local_fs","_file":"modules/API-design/context.md","_extension":"md","plainText":"---\ntitle: Background unit 6 \ntype: reading\norder: 1 \n---\n\n### Background \nAPI design refers to the process of developing application programming interfaces (APIs) that expose data and application functionality for use by developers and users. APIs are important to modern organizations, adding new capabilities to everything from their operations/products to their partnership strategies. It is no longer a stretch to say that most organizations do not ask whether to engage in API programs, but how to do so” [3]()\n"},{"_path":"/modules/api-design/further_reading","_dir":"api-design","_draft":false,"_partial":false,"_locale":"","title":"Further Reading","description":"","type":"reading","order":6,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"further-reading"},"children":[{"type":"text","value":"Further Reading"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Extra material"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Data- Manipulating Strings, by Daniel Shiffman, processing.org "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"Tutorial"}]},{"type":"text","value":"."}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Processing-in-Memory Course: How to Evaluate Data Movement Bottlenecks "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"talk, 1 hours"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Time Series Forecasting Theory, by [time series, 54mn]"},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"time series, 54mn"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Data Processing in Python with Pandas, by Daniel Chen "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"SciPy 2019 Tutorial, 3hours"}]},{"type":"text","value":"."}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Data Analysis with Python - Full Course for Beginners "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"Online course, 4hours"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"further-reading","depth":3,"text":"Further Reading"}]}},"_type":"markdown","_id":"local_fs:modules:API-design:further_reading.md","_source":"local_fs","_file":"modules/API-design/further_reading.md","_extension":"md","plainText":"---\ntitle: Further Reading \ntype: reading\norder: 6\n---\n\n### Further Reading\nExtra material \n\nData- Manipulating Strings, by Daniel Shiffman, processing.org [Tutorial]. \n\nProcessing-in-Memory Course: How to Evaluate Data Movement Bottlenecks [talk, 1 hours] \n\nTime Series Forecasting Theory, by [time series, 54mn][time series, 54mn] \n\nData Processing in Python with Pandas, by Daniel Chen [SciPy 2019 Tutorial, 3hours]. \n\nData Analysis with Python - Full Course for Beginners [Online course, 4hours] \n"},{"_path":"/modules/api-design","_dir":"modules","_draft":false,"_partial":false,"_locale":"","title":"API design","description":"Photo by TODO on Unsplash","category":"Module1","order":6,"author":"eScience 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objectives","description":"After completing unit 6 you will have acquired a basic concept of API design what is an API, exploring APIs, and using APIs.","type":"info","order":0,"body":{"type":"root","children":[{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"After completing unit 6 you will have acquired a basic concept of API design what is an API, exploring APIs, and using APIs."}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Understand the Role of APIs in Modern design: Learners will be able to explain the significance of APIs in enhancing organizational operations, products, and partnerships, and why API programs are essential in today's technological landscape."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Grasp Fundamental Concepts of API Design: Learners will be able to identify key principles of API design, including exposing data and functionality effectively for developer and user interaction."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Apply Basic API Usage Skills"},{"type":"element","tag":"div","props":{},"children":[]},{"type":"text","value":" will be able to utilize APIs by following the \"APIs for Beginners\" tutorial, demonstrating the ability to interact with APIs, retrieve data, and integrate API functionality into applications."},{"type":"element","tag":"br","props":{},"children":[]}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:API-design:info.md","_source":"local_fs","_file":"modules/API-design/info.md","_extension":"md","plainText":"---\ntitle: Learning objectives\ntype: info\norder: 0\n---\n\nAfter completing unit 6 you will have acquired a basic concept of API design what is an API, exploring APIs, and using APIs. \n\n- Understand the Role of APIs in Modern design: Learners will be able to explain the significance of APIs in enhancing organizational operations, products, and partnerships, and why API programs are essential in today's technological landscape.\n\n- Grasp Fundamental Concepts of API Design: Learners will be able to identify key principles of API design, including exposing data and functionality effectively for developer and user interaction.\n\n- Apply Basic API Usage Skills:Learners will be able to utilize APIs by following the \"APIs for Beginners\" tutorial, demonstrating the ability to interact with APIs, retrieve data, and integrate API functionality into applications.\n"},{"_path":"/modules/api-design/instructions","_dir":"api-design","_draft":false,"_partial":false,"_locale":"","title":"Unit 6 Instructions","description":"","type":"reading","order":2,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"instructions"},"children":[{"type":"text","value":"Instructions"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"For Unit 6, we selected a couple of references which will help you to acquire the necessary knowledge on API-design. As main material for Unit 6, we suggest following the 2-hour Tutorial APIs for Beginners - How to use an API, by freeCodeCamp.org "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"1"}]},{"type":"text","value":"."}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"As usual for those who prefer reading material, we suggest reading the book chapter General introduction and Design API patterns "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"2"}]},{"type":"text","value":". Finally, for a quick introduction to understanding APIs, we suggest reading the Red Hat® Shares newsletter, Understanding APIs "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"3"}]},{"type":"text","value":"."}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"To complete Unit 6, you are expected to:"}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Read/watch the suggested teaching material."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Please send the list of questions to your coach one day before."}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Important: the proposed material includes hands-on assignments. Do try them and if you encounter issues you cannot solve, do share them with your coach."}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Time expected to complete this unit: "},{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"4 hours"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"instructions","depth":3,"text":"Instructions"}]}},"_type":"markdown","_id":"local_fs:modules:API-design:instructions.md","_source":"local_fs","_file":"modules/API-design/instructions.md","_extension":"md","plainText":"---\ntitle: Unit 6 Instructions \ntype: reading\norder: 2\n---\n\n### Instructions \n\nFor Unit 6, we selected a couple of references which will help you to acquire the necessary knowledge on API-design. As main material for Unit 6, we suggest following the 2-hour Tutorial APIs for Beginners - How to use an API, by freeCodeCamp.org [1]. \n\n \n\nAs usual for those who prefer reading material, we suggest reading the book chapter General introduction and Design API patterns [2]. Finally, for a quick introduction to understanding APIs, we suggest reading the Red Hat® Shares newsletter, Understanding APIs [3]. \n\nTo complete Unit 6, you are expected to: \n\n - Read/watch the suggested teaching material. \n\n - Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach. \n\n - Please send the list of questions to your coach one day before. \n\nImportant: the proposed material includes hands-on assignments. Do try them and if you encounter issues you cannot solve, do share them with your coach. \n\nTime expected to complete this unit: **4 hours**\n"},{"_path":"/modules/api-design/slides-api-design","_dir":"api-design","_draft":false,"_partial":false,"_locale":"","title":"API design","description":"===","type":"slides","order":3,"body":{"type":"root","children":[{"type":"element","tag":"h1","props":{"id":"api-design"},"children":[{"type":"text","value":"API Design"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"h2","props":{"id":"api-design"},"children":[{"type":"text","value":"API Design "},{"type":"element","tag":"todo","props":{},"children":[]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"http://www.esciencecenter.nl","rel":["nofollow"]},"children":[{"type":"text","value":"www.esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"mailto:info@esciencecenter.nl"},"children":[{"type":"text","value":"info@esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"020 - 460 47 70"}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"api-design","depth":2,"text":"API Design "}]}},"_type":"markdown","_id":"local_fs:modules:API-design:slides-API-design.md","_source":"local_fs","_file":"modules/API-design/slides-API-design.md","_extension":"md","plainText":"---\ntitle: API design \ntype: slides\norder: 3\n---\n\n\n\n# API Design\n\n===\n\n\n\n## API Design \n \n\n===\n\n\n\nwww.esciencecenter.nl\n\ninfo@esciencecenter.nl\n \n020 - 460 47 70 \n"},{"_path":"/modules/api-design/teaching_material","_dir":"api-design","_draft":false,"_partial":false,"_locale":"","title":"Teaching Material","description":"","type":"exercise","order":5,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"teaching-material"},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Teaching Material"}]}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"APIs for Beginners - How to use an API,"},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=GZvSYJDk-us","rel":["nofollow"]},"children":[{"type":"text","value":"freeCodeCamp.org"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"General introduction and Design API patterns "},{"type":"element","tag":"a","props":{"href":"https://livebook.manning.com/book/api-design-patterns/chapter-1/","rel":["nofollow"]},"children":[{"type":"text","value":"Book chapter"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"What is API design? Red Hat® Shares "},{"type":"element","tag":"a","props":{"href":"https://www.redhat.com/en/topics/api","rel":["nofollow"]},"children":[{"type":"text","value":"NewLetters"}]}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"teaching-material","depth":3,"text":"Teaching Material"}]}},"_type":"markdown","_id":"local_fs:modules:API-design:teaching_material.md","_source":"local_fs","_file":"modules/API-design/teaching_material.md","_extension":"md","plainText":"---\ntitle: Teaching Material \ntype: exercise\norder: 5\n---\n\n### **Teaching Material**\n\n- APIs for Beginners - How to use an API,[freeCodeCamp.org](https://www.youtube.com/watch?v=GZvSYJDk-us)\n\n- General introduction and Design API patterns [Book chapter](https://livebook.manning.com/book/api-design-patterns/chapter-1/)\n\n- What is API design? Red Hat® Shares [NewLetters](https://www.redhat.com/en/topics/api)\n\n"},{"_path":"/modules/code-review/context","_dir":"code-review","_draft":false,"_partial":false,"_locale":"","title":"Background unit 3","description":"","type":"reading","order":3,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"background"},"children":[{"type":"text","value":"Background"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Code reviews has helps to improve code quality by detecting issues before they snowball out of control and ensuring consistent standards. This leads to robust software that is built from components for seamless integration and functionality. Code reviews also help the knowledge transfer among the software development team a source code that is constantly under review allows developers to learn more reliable techniques and best practices."}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"background","depth":3,"text":"Background"}]}},"_type":"markdown","_id":"local_fs:modules:Code-review:context.md","_source":"local_fs","_file":"modules/Code-review/context.md","_extension":"md","plainText":"---\ntitle: Background unit 3 \ntype: reading\norder: 3\n---\n\n### Background \n\nCode reviews has helps to improve code quality by detecting issues before they snowball out of control and ensuring consistent standards. This leads to robust software that is built from components for seamless integration and functionality. 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[1] a talk given at PyGotham 2018 conference, you will learn practical techniques to improve communication and minimize conflict during code reviews: Reducing human effort of reviews through automation, increase review velocity, give sincere praise, Framing discussions for constructive debate, and Mitigating stalemates. [2] is also a talk given at Goto Conference 2019 the talk. It gives some hints to avoid reviews that barely scratch the surface of the work being put forth, or reviews that offer feedback that is unclear or hard to act upon. \n\n**To complete Unit 3, you are expected to:** \n\n - Read/watch the suggested [teaching material](http://localhost:3000/internal-training/modules/Software-testing/teaching_material) \n - Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach. \n - Please send the list of questions to your coach one day before the weekly meetings.. \n\nTime expected to complete this unit: **4 hours**\n"},{"_path":"/modules/code-review/slides-code-review","_dir":"code-review","_draft":false,"_partial":false,"_locale":"","title":"Code Review","description":"===","type":"slides","order":3,"body":{"type":"root","children":[{"type":"element","tag":"h1","props":{"id":"code-review"},"children":[{"type":"text","value":"Code Review"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"h2","props":{"id":"code-review"},"children":[{"type":"text","value":"Code Review 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Code Review\n\n===\n\n\n\n## Code Review \n \n\n===\n\n\n\nwww.esciencecenter.nl\n\ninfo@esciencecenter.nl\n \n020 - 460 47 70 \n"},{"_path":"/modules/code-review/slides-reasearch-software","_dir":"code-review","_draft":false,"_partial":false,"_locale":"","title":"Research Software","description":"===","type":"slides","order":3,"body":{"type":"root","children":[{"type":"element","tag":"h1","props":{"id":"research-software"},"children":[{"type":"text","value":"Research Software"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"h2","props":{"id":"what-is-research-software"},"children":[{"type":"text","value":"What is research software?"}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Writing research software involves a unique set of challenges and 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software?"},{"id":"research-software-lifecycle","depth":2,"text":"Research Software lifecycle"},{"id":"research-software-lifecycle-1","depth":2,"text":"Research Software lifecycle"},{"id":"research-software-in-all-scientific-disciplines","depth":2,"text":"Research software in all scientific disciplines"},{"id":"research-software-requirements","depth":2,"text":"Research software requirements"},{"id":"re-use-existing-open-source-software","depth":2,"text":"Re-use existing open-Source software"},{"id":"programming","depth":2,"text":"Programming"},{"id":"programming-languages","depth":2,"text":"Programming Languages"},{"id":"software-architecture","depth":2,"text":"Software Architecture"},{"id":"devopsteam-development","depth":2,"text":"DevOpsTeam development"},{"id":"reusability-of-research-software","depth":2,"text":"Reusability of Research software"},{"id":"takeaway","depth":2,"text":"Takeaway"}]}},"_type":"markdown","_id":"local_fs:modules:Code-review:slides-reasearch-software.md","_source":"local_fs","_file":"modules/Code-review/slides-reasearch-software.md","_extension":"md","plainText":"---\ntitle: Research Software \ntype: slides\norder: 3\n---\n\n\n\n# Research Software \n\n===\n\n\n\n## What is research software?\n \n- Writing research software involves a unique set of challenges and considerations. \n- Research software development is an iterative process, and adapting to emerging best practices and community standards is crucial for success. \n- Collaboration and open communication with colleagues and the research community are key to producing high-quality research software.\n\nNote: \n\nHere are some best practices to keep in mind when developing research software:\n1. **Plan and Design Carefully:**\n - Start with a clear project plan and research goals.\n - Design your software architecture thoughtfully, with modularity and scalability in mind.\n - Document your software design, including data structures, algorithms, and dependencies.\n\n2. **Version Control:**\n - Use a version control system (e.g., Git) to track changes and collaborate with others.\n - Host your code on platforms like GitHub for easy collaboration and sharing.\n\n3. **Reproducibility:**\n - Make your code and research environment as reproducible as possible.\n - Document dependencies and provide setup instructions.\n - Consider containerization with tools like Docker to encapsulate the environment.\n\n4. **Documentation:**\n - Write clear and comprehensive documentation for your code.\n - Include comments in the code to explain complex logic or algorithms.\n - Use tools like Jupyter Notebooks for interactive documentation.\n\n5. **Testing:**\n - Implement unit tests, integration tests, and validation tests to ensure your software works correctly.\n - Use continuous integration (CI) to automate testing and catch errors early.\n\n6. **Performance Optimization:**\n - Optimize critical parts of your code for efficiency.\n - Use profiling tools to identify bottlenecks.\n - Consider parallelization or GPU acceleration for computationally intensive tasks.\n\n7. **Data Management:**\n - Implement data handling and storage best practices, including data cleaning and validation.\n - Use appropriate data structures and databases for efficient data management.\n\n8. **Licensing:**\n - Choose an open-source license that aligns with your project's goals (e.g., MIT, Apache, or GPL).\n - Clearly specify the license in your project repository.\n\n9. **Collaboration:**\n - Foster a collaborative environment by welcoming contributions from others.\n - Use platforms like GitHub for issue tracking and pull requests.\n\n10. **Security:**\n - Protect sensitive data and prevent security vulnerabilities.\n - Keep libraries and dependencies up to date to address security issues.\n\n11. **User-Friendly Interfaces:**\n - Develop user-friendly interfaces and command-line options.\n - Consider creating graphical user interfaces (GUIs) for non-technical users.\n\n12. **Community Building:**\n - Engage with the research community, present your work, and seek feedback.\n - Consider publishing your code and datasets in repositories like Zenodo or Figshare.\n\n13. **Citation and DOI:**\n - Assign a DOI to your software, making it citable in research publications.\n - Encourage others to cite your work when they use your software.\n\n14. **Maintenance and Sustainability:**\n - Plan for long-term maintenance and updates.\n - Seek funding or support to ensure the sustainability of your research software.\n\n15. **Ethics and Compliance:**\n - Ensure your software complies with ethical guidelines and legal regulations, especially when dealing with sensitive data.\n\n16. **Peer Review:**\n - Consider submitting your software for peer review through platforms like the Journal of Open Source Software (JOSS).\n\n===\n\n\n\n## Research Software lifecycle \n\n| steps | Authors |\n| :-- | :-- |\n| 1. Conducting Research | Individual / team |\n| **Design phase:** **(2)** Software architecture **(3)** Check open source | Individual / team |\n| **Coding phase:** **(4)** Choose a language **(5)** Separation of Concern (Modularity) **(6)** Apply software patterns | Individual / team |\n| **Testing Phase:** **(7)** Unit testing / Integration / Performance / Security | Individual / team |\n| **Documentation:** **(8)** User documentation/ developer / Tutorials / publication | Individual / team |\n| **Distribution:** **(9)** Choose a licence **(11.** publication **(12)** make you software public | Individual / team |\n\n===\n\n\n\n## Research Software lifecycle \n\n\n
\n\n
\n\n===\n\n\n\n## Research software in all scientific disciplines\n \n
\n\n
\n\n===\n\n\n\n## Research software requirements\n \n
\n\n
\n\n===\n\n\n\n## Re-use existing open-Source software\n\n
\n\n- Available for free*\n- Maintained by volunteers\n- Documentation not always up to date\n\n
\n\n
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\nPhoto by xxxx on xxxx\n
\n \n\nNote: \n\nHow-to\n - **How:** Search engines: searchcode.com\" or \"searchcode.com\n - **Where:** Platforms and directories for open-source software, such as GitHub, GitLab, SourceForge, and Bitbucket\n - **Easy Install**: Package Mangers: make it easy to find and install open-source libraries: pip (Python), npm(Node.js), and RubyGems,(Ruby) …\n - **Under a License**: Apache, MIT, GPL, LGPL, BCD CC*\n - A software license is a legal agreement that define the terms and conditions under which software can be used, distributed, modified, and shared\n\n\nThese licenses serve to protect the rights of the software developer while also defining what users are allowed to do with the software. \nHere are some key components typically found in software licenses:\n\n1. **License Grant:** This section describes what the software license allows users to do. It may specify whether the software can be used, copied, modified, or distributed.\n\n2. **Restrictions:** These are limitations placed on the user, such as restrictions on reverse engineering, decompiling, or using the software for specific purposes.\n\n3. **Usage Terms:** This section may include usage terms, such as the number of users or devices that can use the software, the duration of the license, and whether the license is transferable.\n\n4. **Distribution:** If the software can be distributed, the license may specify the conditions under which it can be shared or sold.\n\n5. **Modification:** If users are allowed to modify the software, the license might specify the terms for sharing those modifications, including whether they must be open source or can remain proprietary.\n\n6. **Attribution:** Some licenses require users to provide attribution to the original software developer in their own work.\n\n7. **Warranty and Liability:** This section outlines the warranty, if any, provided with the software. It may also specify the extent of liability of the software developer for any damages or issues arising from the software's use.\n\n8. **Termination:** The license may include conditions under which it can be terminated, such as non-compliance with the license terms.\n\n9. **Governing Law:** This indicates which jurisdiction's laws will govern the license agreement.\n\nCommon types of software licenses include open source licenses like the MIT License, Apache License, and GNU General Public License (GPL), as well as proprietary licenses used for commercial software. Each type of license comes with its own set of terms and conditions, ranging from highly permissive (e.g., MIT License) to more restrictive (e.g., some proprietary licenses).\n\nIt's essential to carefully read and understand the terms of a software license before using or distributing the software, as violation of the license terms can have legal consequences. Additionally, some licenses are not compatible with one another, so it's crucial to ensure that the software's licenses align with your intended use and distribution.\n\n\n===\n\n\n\n## Programming \n\n\n There are several programming paradigms, which are different approaches to writing code and structuring programs\n\n
\n\n- Procedural Programming\n - Object-Oriented Programming \n - Functional Programming \n - Declarative Programming\n - Logic Programming\n - Concurrent and Parallel Programming\n - Event-Driven Programming\n
\n\n
\n\n
\n\n
\nPhoto by xxxx on xxxx\n
\n\nNote: \n\n- Don’t get into religious programming discussion and attitude.\n- Choose based on what fits best\n - Expressiveness\n - Ease of use\n - Eco-systems (libraries, tools for debugging, community)\n- Imperative Programming: In imperative programming, you provide explicit instructions for the computer to follow, specifying the sequence of steps to achieve a particular result. Languages like C, C++, and Pascal are often associated with this paradigm.\n- Procedural Programming: Procedural programming is a subset of imperative programming where code is organized into procedures or functions. It promotes code reusability and maintainability. C and Pascal are examples of languages that support procedural programming.\n- Object-Oriented Programming (OOP): In OOP, programs are structured around objects, which encapsulate data and behavior. Key concepts include classes, inheritance, and polymorphism. Java, C++, and Python are popular OOP languages.\n- Functional Programming (FP): Functional programming treats computation as the evaluation of mathematical functions and avoids changing state and mutable data. It relies heavily on functions as first-class citizens. Languages like Haskell, Lisp, and Erlang are associated with this paradigm.\n- Declarative Programming: In declarative programming, you specify what you want to achieve without detailing how it should be done. SQL, for example, is a declarative language used for querying databases.\n- Logic Programming: Logic programming is based on formal logic and rule-based systems. Prolog is a well-known logic programming language used for symbolic reasoning and knowledge representation.\n- Event-Driven Programming: This paradigm is common in GUI programming and systems where code responds to events or messages. Event-driven languages include JavaScript and Python (with libraries like Tkinter).\nAspect-Oriented Programming (AOP): AOP is a complement to OOP. It focuses on separating cross-cutting concerns (e.g., logging, security) from the main program logic. AspectJ is a popular AOP extension for Java.\n- Concurrent and Parallel Programming: These paradigms address multi-threading, parallel processing, and synchronization. Languages like Go, Erlang, and Java provide features for concurrent and parallel programming.\n- Meta-Programming: Meta-programming is a programming technique where code generates, modifies, or analyzes other code. It's often used in code generation and domain-specific languages.\n- Scripting: Scripting languages are designed for quick, dynamic, and interpreted scripting tasks. Python, Ruby, and - JavaScript are scripting languages commonly used for automation and web development.\n- Array Programming: Array programming emphasizes operations on entire arrays rather than individual elements. Languages like MATLAB and NumPy (Python library) support array programming.\n- Reactive Programming\n\n===\n\n\n\n\n## Programming Languages\n\n\n\n
\n\nDon’t get into religious programming discussion and attitude\\.\n- Choose based on what fits best\n - Expressiveness\n - Ease of use\n - Eco-systems (libraries, tools for debugging, community)\n\n
\n\n
\n\n
\n
\nPhoto by xxxx on xxxx\n
\n\nNote: \n\n[https://en.wikipedia.org/wiki/Comparison_of_multi-paradigm_programming_languages](https://en.wikipedia.org/wiki/Comparison_of_multi-paradigm_programming_languages) \n\n===\n\n\n\n## Software Architecture\n\n
\n\nDesign\n- Functional vs Non-functional requirements\n- Architecture style\n- Component design\n- Software patterns\n- Scalability\n- Security Performance\n- Deployment and hosting\n- Monitoring and logging\n- Compliance and standards\n- Change management\n- Review and validation\n
\n\n
\n\n
\n
\nPhoto by xxxx on xxxx\n
\n\nNote:\n - Use appropriate Tools:\n - provide features for creating architectural diagrams, defining components, and visualizing the structure of a software system\n\n[https://softwarearchitecture.tools/#diagramming-tools](https://softwarearchitecture.tools/#diagramming-tools)\n\n \n\n===\n\n\n\n# Software engineering best practices\n\n\n
\n\n- Modular and Scalable Design\n- Version control\n- Coding Standards (Readability/code formatting)\n- Test-Driven Development\n- Code Reviews\n- continuous Integration (CI) and Continuous Delivery (CD)\n- Bug Tracking and Issue Management\n- Security Practices\n- Performance Optimization\n- User Experience (UX) and Usability\n- Documentation\n
\n\n
\n\n
\n\n\nNote:\n\nUse of Integrated Development Environment (IDE)\n\nhttps://sourceforge\\.net/directory/integrated\\-development\\-environments\\-ide/mac/\n\n===\n\n\n\n## DevOpsTeam development\n\n
\n\n- DevOps foster a culture of collaboration and continuous improvement\n - practices, principles enhance collaboration and communication between software development and IT operations teams\n- The primary objective is to\n - increase the speed, quality, and reliability\n - Continuous integration (CI)\n - Monitoring and Feedback\n - Security\n - Microservices and containers\n - Scalability and Resilience\n - DevOps toolchain\n
\n
\n\n
\n\nNote:\n\n- DevOpsis not a one-size-fits-all approach, and its implementation can vary depending on an organization's specific needs and constraints.The primary objective is to increase the speed, quality, and reliability of software delivery\n\n===\n\n\n\n## Reusability of Research software\n\n\n
\n\n- Does following SE best practices guarantee re-usability and user adoption?\n - it should in increase adoption,\n - Beyond FAIR\n
\n
\n\n
\n\n\nNote:\n\n- Identify\n - the competition\n - the Unique seling point\n- Reach out potential\n - Tutorials/demos/papers\n- Dont forget to make the software repository public\n\n===\n\n\n\n## Takeaway\n\n
\n\n- Developing a software is\n - a long and tedious process\n - it worth to defend and sustaining but not at all costs\n- Suggestions: \n - Don’t fall in Love with your software When needed drop it and use another solution\n
\n
\n\n
\n\n===\n\n\n\nwww.esciencecenter.nl\n\ninfo@esciencecenter.nl\n \n020 - 460 47 70 \n"},{"_path":"/modules/code-review/teaching_material","_dir":"code-review","_draft":false,"_partial":false,"_locale":"","title":"Teaching Material","description":"","type":"exercise","order":3,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"teaching-material"},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Teaching Material"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Teaching material"}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"How to Do Code Reviews Like a Human "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=0t4_MfHgb_A","rel":["nofollow"]},"children":[{"type":"text","value":"PyGotham2018"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Amazing Code Reviews: Creating a Superhero Collective "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=ly86Wq_E18o","rel":["nofollow"]},"children":[{"type":"text","value":"Talk@GOto2019"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Code review guidelines "},{"type":"element","tag":"a","props":{"href":""},"children":[]}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"teaching-material","depth":3,"text":"Teaching Material"}]}},"_type":"markdown","_id":"local_fs:modules:Code-review:teaching_material.md","_source":"local_fs","_file":"modules/Code-review/teaching_material.md","_extension":"md","plainText":"---\ntitle: Teaching Material \ntype: exercise\norder: 3\n---\n\n### **Teaching Material**\n\n\nTeaching material\n\n- How to Do Code Reviews Like a Human [PyGotham2018](https://www.youtube.com/watch?v=0t4_MfHgb_A)\n- Amazing Code Reviews: Creating a Superhero Collective [Talk@GOto2019](https://www.youtube.com/watch?v=ly86Wq_E18o)\n- Code review guidelines []()\n"},{"_path":"/modules/collaboration-using-github/context","_dir":"collaboration-using-github","_draft":false,"_partial":false,"_locale":"","title":"Background unit 2","description":"","type":"reading","order":1,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"background"},"children":[{"type":"text","value":"Background"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Unit 2 covered only the basics of GitHub, in this Unit you will learn how to use GitHub to collaborate with your project team and beyond in an efficient and proper manner. In Unit 2 you will learn the collaboration mechanisms offered by GitHub."}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"background","depth":3,"text":"Background"}]}},"_type":"markdown","_id":"local_fs:modules:Collaboration-using-github:context.md","_source":"local_fs","_file":"modules/Collaboration-using-github/context.md","_extension":"md","plainText":"---\ntitle: Background unit 2 \ntype: reading\norder: 1\n---\n\n### Background \nUnit 2 covered only the basics of GitHub, in this Unit you will learn how to use GitHub to collaborate with your project team and beyond in an efficient and proper manner. In Unit 2 you will learn the collaboration mechanisms offered by GitHub.\n"},{"_path":"/modules/collaboration-using-github/further_reading","_dir":"collaboration-using-github","_draft":false,"_partial":false,"_locale":"","title":"Further Reading","description":"","type":"reading","order":5,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"further-reading"},"children":[{"type":"text","value":"Further Reading"}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"further-reading","depth":3,"text":"Further Reading"}]}},"_type":"markdown","_id":"local_fs:modules:Collaboration-using-github:further_reading.md","_source":"local_fs","_file":"modules/Collaboration-using-github/further_reading.md","_extension":"md","plainText":"---\ntitle: Further Reading \ntype: reading\norder: 5\n---\n\n### Further Reading\n\n"},{"_path":"/modules/collaboration-using-github","_dir":"modules","_draft":false,"_partial":false,"_locale":"","title":"Collaboration using GitHub","description":"Photo by TODO on Unsplash","category":"Module3","order":2,"author":"eScience Center","abstract":null,"thumbnail":"github-collaboration.jpg","visibility":"visible","body":{"type":"root","children":[{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Photo by "},{"type":"element","tag":"a","props":{"href":""},"children":[{"type":"text","value":"TODO"}]},{"type":"text","value":" on "},{"type":"element","tag":"a","props":{"href":"https://csharp-station.com/Tutorial/CSharp/Lesson19"},"children":[{"type":"text","value":"Unsplash"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:Collaboration-using-github:index.md","_source":"local_fs","_file":"modules/Collaboration-using-github/index.md","_extension":"md","plainText":"---\ntitle: Collaboration using GitHub\ncategory: Module3\norder: 2\nauthor: eScience Center\nabstract: \nthumbnail: \"github-collaboration.jpg\"\nvisibility: visible\n---\n\n\nPhoto by TODO on Unsplash\n \n \n"},{"_path":"/modules/collaboration-using-github/info","_dir":"collaboration-using-github","_draft":false,"_partial":false,"_locale":"","title":"Learning objectives","description":"","type":"info","order":0,"body":{"type":"root","children":[{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Understand GitHub Collaboration Mechanisms: Learners will be able to describe key GitHub collaboration features, including pull requests, branching, merging, and team workflows, and understand how to use these tools to collaborate efficiently within a project team."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Apply GitHub Workflow Best Practices: Learners will be able to implement GitHub workflows, such as using branches for feature development and handling pull requests, to ensure smooth collaboration and code integration across teams."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Understand GitHub Actions and CI/CD Pipelines"},{"type":"element","tag":"div","props":{},"children":[]},{"type":"text","value":" will be able to explain the basic concepts of GitHub Actions, set up simple CI/CD pipelines, and automate testing and deployment processes to improve software delivery efficiency."},{"type":"element","tag":"br","props":{},"children":[]}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:Collaboration-using-github:info.md","_source":"local_fs","_file":"modules/Collaboration-using-github/info.md","_extension":"md","plainText":"---\ntitle: Learning objectives\ntype: info\norder: 0\n---\n\n- Understand GitHub Collaboration Mechanisms: Learners will be able to describe key GitHub collaboration features, including pull requests, branching, merging, and team workflows, and understand how to use these tools to collaborate efficiently within a project team.\n\n- Apply GitHub Workflow Best Practices: Learners will be able to implement GitHub workflows, such as using branches for feature development and handling pull requests, to ensure smooth collaboration and code integration across teams.\n\n- Understand GitHub Actions and CI/CD Pipelines:Learners will be able to explain the basic concepts of GitHub Actions, set up simple CI/CD pipelines, and automate testing and deployment processes to improve software delivery efficiency.\n"},{"_path":"/modules/collaboration-using-github/instructions","_dir":"collaboration-using-github","_draft":false,"_partial":false,"_locale":"","title":"Unit 2 Instructions","description":"","type":"reading","order":2,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"instructions"},"children":[{"type":"text","value":"Instructions"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"To learn the collaboration features of GitHub, we have selected two short videos which cover collaboration concepts in GitHub: pull request, Branching, Merging & Team Workflow [1]"},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"2"}]},{"type":"text","value":". To finish off with learning GitHub, we propose a lecture which focuses on GitHub actions Basic Concepts and CI/CD Pipeline "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"3"}]},{"type":"text","value":"."}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"To complete Unit 2, you are expected to:"}]}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Read/watch the suggested "},{"type":"element","tag":"a","props":{"href":"http://localhost:3000/internal-training/modules/Software-testing/teaching_material","rel":["nofollow"]},"children":[{"type":"text","value":"teaching material"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Please send the list of questions to your coach one day before the weekly meetings.."}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Time expected to complete this unit: "},{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"4 hours"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"instructions","depth":3,"text":"Instructions"}]}},"_type":"markdown","_id":"local_fs:modules:Collaboration-using-github:instructions.md","_source":"local_fs","_file":"modules/Collaboration-using-github/instructions.md","_extension":"md","plainText":"---\ntitle: Unit 2 Instructions \ntype: reading\norder: 2\n---\n\n### Instructions \nTo learn the collaboration features of GitHub, we have selected two short videos which cover collaboration concepts in GitHub: pull request, Branching, Merging & Team Workflow [1][2]. To finish off with learning GitHub, we propose a lecture which focuses on GitHub actions Basic Concepts and CI/CD Pipeline [3]. \n \n**To complete Unit 2, you are expected to:** \n\n - Read/watch the suggested [teaching material](http://localhost:3000/internal-training/modules/Software-testing/teaching_material) \n - Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach. \n - Please send the list of questions to your coach one day before the weekly meetings.. \n\nTime expected to complete this unit: **4 hours**\n"},{"_path":"/modules/collaboration-using-github/slides-collaboration-using-github","_dir":"collaboration-using-github","_draft":false,"_partial":false,"_locale":"","title":"Collaboration using GitHub","description":"===","type":"slides","order":3,"body":{"type":"root","children":[{"type":"element","tag":"h1","props":{"id":"collaboration-using-github"},"children":[{"type":"text","value":"Collaboration using GitHub"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"h2","props":{"id":"collaboration-using-github"},"children":[{"type":"text","value":"Collaboration using GitHub "},{"type":"element","tag":"todo","props":{},"children":[]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"http://www.esciencecenter.nl","rel":["nofollow"]},"children":[{"type":"text","value":"www.esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"mailto:info@esciencecenter.nl"},"children":[{"type":"text","value":"info@esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"020 - 460 47 70"}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"collaboration-using-github","depth":2,"text":"Collaboration using GitHub "}]}},"_type":"markdown","_id":"local_fs:modules:Collaboration-using-github:slides-collaboration-using-github.md","_source":"local_fs","_file":"modules/Collaboration-using-github/slides-collaboration-using-github.md","_extension":"md","plainText":"---\ntitle: Collaboration using GitHub \ntype: slides\norder: 3\n---\n\n\n\n# Collaboration using GitHub\n\n===\n\n\n\n## Collaboration using GitHub \n \n\n===\n\n\n\nwww.esciencecenter.nl\n\ninfo@esciencecenter.nl\n \n020 - 460 47 70 \n"},{"_path":"/modules/collaboration-using-github/teaching_material","_dir":"collaboration-using-github","_draft":false,"_partial":false,"_locale":"","title":"Teaching Material","description":"","type":"exercise","order":3,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"teaching-material"},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Teaching Material"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Teaching material"}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Collaborative work with GitHub "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=MnUd31TvBoU","rel":["nofollow"]},"children":[{"type":"text","value":"Online Lecture"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"GITHUB PULL REQUEST, Branching, Merging & Team Workflow "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=oFYyTZwMyAg","rel":["nofollow"]},"children":[{"type":"text","value":"onlineVideo"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"GitHub Actions Tutorial - 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Contributing to OSS is not only beneficial to individual developers, but also to organizations ."}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"background","depth":3,"text":"Background"}]}},"_type":"markdown","_id":"local_fs:modules:Contribution-to-open-source-software:context.md","_source":"local_fs","_file":"modules/Contribution-to-open-source-software/context.md","_extension":"md","plainText":"---\ntitle: Background unit 4 \ntype: reading\norder: 1 \n---\n\n### Background \nWhile using OSS libraries increases the efficiency of the developers, contributing to OSS helps them to gain a much deeper knowledge about the software, build confidence and your reputation and can leverage their career. Contributing to OSS is not only beneficial to individual developers, but also to organizations .\n"},{"_path":"/modules/contribution-to-open-source-software/further_reading","_dir":"contribution-to-open-source-software","_draft":false,"_partial":false,"_locale":"","title":"Further Reading","description":"","type":"reading","order":6,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"further-reading"},"children":[{"type":"text","value":"Further Reading"}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"further-reading","depth":3,"text":"Further Reading"}]}},"_type":"markdown","_id":"local_fs:modules:Contribution-to-open-source-software:further_reading.md","_source":"local_fs","_file":"modules/Contribution-to-open-source-software/further_reading.md","_extension":"md","plainText":"---\ntitle: Further Reading \ntype: reading\norder: 6\n---\n\n### Further 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will be able to demonstrate how to connect with the OSS community, communicate with project maintainers, and contribute in meaningful ways that align with the project's goals while learning from the collaborative environment."}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:Contribution-to-open-source-software:info.md","_source":"local_fs","_file":"modules/Contribution-to-open-source-software/info.md","_extension":"md","plainText":"---\ntitle: Learning objectives\ntype: info\norder: 0\n---\n\n- Understand the Benefits of Contributing to Open-S: ource Software (OSS): Learners will be able to explain how contributing to OSS can deepen their knowledge of software, enhance their career opportunities, and build a professional reputation, both individually and within an organization.\n\n- Learn the Process of Contributing to OSS Projects: Learners will be able to outline the steps involved in contributing to OSS, including finding 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You will learn how to find your project and contributions to start with, how to connect with the community to make sure your contributions are useful, and the many diverse types of contributions you can make."},{"type":"element","tag":"br","props":{},"children":[]},{"type":"text","value":"\nTo complete Unit 4, you are expected to:"}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Read/watch the suggested teaching material."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Please send the list of questions to your coach one day before."}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Important: the proposed material includes hands-on assignments. Do try them and if you encounter issues you cannot solve, do share them with your coach."}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Time expected to complete this unit: "},{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"4 hours"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"instructions","depth":3,"text":"Instructions"}]}},"_type":"markdown","_id":"local_fs:modules:Contribution-to-open-source-software:instructions.md","_source":"local_fs","_file":"modules/Contribution-to-open-source-software/instructions.md","_extension":"md","plainText":"---\ntitle: Unit 4 Instructions \ntype: reading\norder: 2\n---\n\n### Instructions \nFor Unit 4, we selected three references that can help describe the process of contributing to existing Open source software. [1] is talk where the speaker shares her experience with contributing to Cucumber, including making an early mistake (merging something that was not ready yet) and fixing it with the support of core maintainers, and still feeling welcome. You will learn how to find your project and contributions to start with, how to connect with the community to make sure your contributions are useful, and the many diverse types of contributions you can make. \nTo complete Unit 4, you are expected to: \n\n - Read/watch the suggested teaching material. \n\n - Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach. \n\n - Please send the list of questions to your coach one day before. \n\nImportant: the proposed material includes hands-on assignments. Do try them and if you encounter issues you cannot solve, do share them with your coach. \n\nTime expected to complete this unit: **4 hours**\n"},{"_path":"/modules/contribution-to-open-source-software/slides-contributing-to-open-source-software","_dir":"contribution-to-open-source-software","_draft":false,"_partial":false,"_locale":"","title":"Contributing to Open Source software","description":"===","type":"slides","order":3,"body":{"type":"root","children":[{"type":"element","tag":"h1","props":{"id":"contributing-to-open-source-software"},"children":[{"type":"text","value":"Contributing to Open Source software"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"h2","props":{"id":"contributing-to-open-source-software"},"children":[{"type":"text","value":"Contributing to Open Source software "},{"type":"element","tag":"todo","props":{},"children":[]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"http://www.esciencecenter.nl","rel":["nofollow"]},"children":[{"type":"text","value":"www.esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"mailto:info@esciencecenter.nl"},"children":[{"type":"text","value":"info@esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"020 - 460 47 70"}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"contributing-to-open-source-software","depth":2,"text":"Contributing to Open Source software "}]}},"_type":"markdown","_id":"local_fs:modules:Contribution-to-open-source-software:slides-contributing-to-open-source-software.md","_source":"local_fs","_file":"modules/Contribution-to-open-source-software/slides-contributing-to-open-source-software.md","_extension":"md","plainText":"---\ntitle: Contributing to Open Source software \ntype: slides\norder: 3\n---\n\n\n\n# Contributing to Open Source software \n\n===\n\n\n\n## Contributing to Open Source software \n \n\n===\n\n\n\nwww.esciencecenter.nl\n\ninfo@esciencecenter.nl\n \n020 - 460 47 70 \n"},{"_path":"/modules/contribution-to-open-source-software/teaching_material","_dir":"contribution-to-open-source-software","_draft":false,"_partial":false,"_locale":"","title":"Teaching Material","description":"","type":"exercise","order":5,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"teaching-material"},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Teaching 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Material"}]}},"_type":"markdown","_id":"local_fs:modules:Contribution-to-open-source-software:teaching_material.md","_source":"local_fs","_file":"modules/Contribution-to-open-source-software/teaching_material.md","_extension":"md","plainText":"---\ntitle: Teaching Material \ntype: exercise\norder: 5\n---\n\n### **Teaching Material**\n\n- How I Started Contributing to Open Source and Why You Should Too [Talk](https://youtu.be/GAqfMNB-YBU) [slides](https://speakerdeck.com/mlvandijk/collaborating-on-open-source-software-8d720d71-a31b-4079-8c67-08dbda6c0aac) \n- Complete Guide to Open Source - How to Contribute [Lecture](https://www.youtube.com/watch?v=yzeVMecydCE) \n"},{"_path":"/modules/data-processing-and-data-storage/context","_dir":"data-processing-and-data-storage","_draft":false,"_partial":false,"_locale":"","title":"Background unit 7","description":"","type":"reading","order":1,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"background"},"children":[{"type":"text","value":"Background"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"For Unit 7, we selected a number of references which will help you go beyond just knowing the syntax of the language.\n"},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=Pg3UeB-5FdA","rel":["nofollow"]},"children":[{"type":"text","value":"teaching material 1"}]},{"type":"text","value":" is a talk given at a conference in 2017 which goes over the common programming paradigm and explains the similarities and the differences.\n"},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=Ps8jOj7diA0","rel":["nofollow"]},"children":[{"type":"text","value":"teaching material 2"}]},{"type":"text","value":" is the first lecture of course at Stanford university which aims to teach several programming languages.\nThe lecture is a general introduction to the course, it stresses the intellectual value of learning a programming language which is to study the paradigm they represent, so do not focus on the details but more on how the lecturer makes the link between a language and its paradigm."}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"background","depth":3,"text":"Background"}]}},"_type":"markdown","_id":"local_fs:modules:Data-processing-and-data-storage:context.md","_source":"local_fs","_file":"modules/Data-processing-and-data-storage/context.md","_extension":"md","plainText":"---\ntitle: Background unit 7 \ntype: reading\norder: 1\n---\n\n### Background \n\nFor Unit 7, we selected a number of references which will help you go beyond just knowing the syntax of the language.\n[teaching material 1](https://www.youtube.com/watch?v=Pg3UeB-5FdA) is a talk given at a conference in 2017 which goes over the common programming paradigm and explains the similarities and the differences. \n[teaching material 2](https://www.youtube.com/watch?v=Ps8jOj7diA0) is the first lecture of course at Stanford university which aims to teach several programming languages. \nThe lecture is a general introduction to the course, it stresses the intellectual value of learning a programming language which is to study the paradigm they represent, so do not focus on the details but more on how the lecturer makes the link between a language and its paradigm.\n"},{"_path":"/modules/data-processing-and-data-storage/further_reading","_dir":"data-processing-and-data-storage","_draft":false,"_partial":false,"_locale":"","title":"Further Reading","description":"","type":"reading","order":5,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"further-reading"},"children":[{"type":"text","value":"Further 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54mn"}]},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=chp71nEc320","rel":["nofollow"]},"children":[{"type":"text","value":"time series from scratch"}]},{"type":"text","value":")"}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Data Processing in Python with Pandas, by Daniel Chen "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=5rNu16O3YNE","rel":["nofollow"]},"children":[{"type":"text","value":"SciPy 2019 Tutorial, 3hours"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Data Analysis with Python - Full Course for Beginners "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=5rNu16O3YNE","rel":["nofollow"]},"children":[{"type":"text","value":"Online course, 4hours"}]}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"further-reading","depth":3,"text":"Further Reading"}]}},"_type":"markdown","_id":"local_fs:modules:Data-processing-and-data-storage:further_reading.md","_source":"local_fs","_file":"modules/Data-processing-and-data-storage/further_reading.md","_extension":"md","plainText":"---\ntitle: Further Reading \ntype: reading\norder: 5\n---\n\n### Further Reading\n\n- Data- Manipulating Strings, by Daniel Shiffman, processing.org [Tutorial](https://p5.readthedocs.io/en/latest/tutorials/data.html)\n\n- Processing-in-Memory Course: How to Evaluate Data Movement Bottlenecks [talk, 1 hours](https://www.youtube.com/watch?v=An2lACOASdo)\n\n- Time Series Forecasting Theory, by [time series, 54mn](https://www.youtube.com/watch?v=An2lACOASdo)[time series from scratch](https://www.youtube.com/watch?v=chp71nEc320))\n\n- Data Processing in Python with Pandas, by Daniel Chen [SciPy 2019 Tutorial, 3hours](https://www.youtube.com/watch?v=5rNu16O3YNE)\n\n- Data Analysis with Python - Full Course for Beginners [Online course, 4hours](https://www.youtube.com/watch?v=5rNu16O3YNE)\n"},{"_path":"/modules/data-processing-and-data-storage","_dir":"modules","_draft":false,"_partial":false,"_locale":"","title":"Data processing and data storage","description":"Photo by TODO on Unsplash","category":"Module1","order":7,"author":"eScience Center","abstract":null,"thumbnail":"data-processing.png","visibility":"visible","body":{"type":"root","children":[{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Photo by "},{"type":"element","tag":"a","props":{"href":""},"children":[{"type":"text","value":"TODO"}]},{"type":"text","value":" on "},{"type":"element","tag":"a","props":{"href":"https://csharp-station.com/Tutorial/CSharp/Lesson19"},"children":[{"type":"text","value":"Unsplash"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:Data-processing-and-data-storage:index.md","_source":"local_fs","_file":"modules/Data-processing-and-data-storage/index.md","_extension":"md","plainText":"---\ntitle: Data processing and data storage \ncategory: Module1\norder: 7 \nauthor: eScience Center\nabstract: \nthumbnail: \"data-processing.png\"\nvisibility: visible\n---\n\n\nPhoto by TODO on Unsplash\n \n \n"},{"_path":"/modules/data-processing-and-data-storage/info","_dir":"data-processing-and-data-storage","_draft":false,"_partial":false,"_locale":"","title":"Learning objectives","description":"Unit 7 aims to raise your awareness about the fact that when you choose a programming language for your project.","type":"info","order":0,"body":{"type":"root","children":[{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Unit 7 aims to raise your awareness about the fact that when you choose a programming language for your project."}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Understand Data Preparation Techniques: Learners will be able to describe and apply basic data preparation methods, including cleaning, transforming, and organizing data for effective analysis."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Explore Data Storage and Access Technologies: Learners will be able to explain the principles of data storage and access, identifying suitable technologies and approaches for managing structured and unstructured data."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Analyze Data Using Descriptive Statistics: Learners will be able to calculate and interpret descriptive statistical measures, such as mean, median, and standard deviation, to summarize and analyze data effectively."}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Note"}]},{"type":"text","value":": It is advised that you develop more in-depth knowledge about the programming paradigm you will use during the project which is beyond the scope of this unit."}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:Data-processing-and-data-storage:info.md","_source":"local_fs","_file":"modules/Data-processing-and-data-storage/info.md","_extension":"md","plainText":"---\ntitle: Learning objectives\ntype: info\norder: 0\n---\n\nUnit 7 aims to raise your awareness about the fact that when you choose a programming language for your project.\n\n\n- Understand Data Preparation Techniques: Learners will be able to describe and apply basic data preparation methods, including cleaning, transforming, and organizing data for effective analysis.\n\n- Explore Data Storage and Access Technologies: Learners will be able to explain the principles of data storage and access, identifying suitable technologies and approaches for managing structured and unstructured data.\n\n- Analyze Data Using Descriptive Statistics: Learners will be able to calculate and interpret descriptive statistical measures, such as mean, median, and standard deviation, to summarize and analyze data effectively.\n\n\n**Note**: It is advised that you develop more in-depth knowledge about the programming paradigm you will use during the project which is beyond the scope of this unit.\n"},{"_path":"/modules/data-processing-and-data-storage/instructions","_dir":"data-processing-and-data-storage","_draft":false,"_partial":false,"_locale":"","title":"Unit 7 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This will be used for the discussions during the weekly consultation hours with the coach."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Please send the list of questions to your coach one day before."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Practical hands-on for this unit are provided by the material used for eScience Center External Training program "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"3"}]},{"type":"text","value":".\nYou can do the hands-on individually or join a the eScience Center external workshop.\nCheck the eScience "},{"type":"element","tag":"a","props":{"href":"https://www.esciencecenter.nl/digital-skills/","rel":["nofollow"]},"children":[{"type":"text","value":"Digital-skills"}]},{"type":"text","value":" for the workshops schedule,\ncontact the "},{"type":"element","tag":"a","props":{"href":"mailto:training@esciencecenter.nl"},"children":[{"type":"text","value":"eScience Center Training"}]},{"type":"text","value":" to check whether there is still space for you to join."}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"instructions","depth":3,"text":"Instructions"}]}},"_type":"markdown","_id":"local_fs:modules:Data-processing-and-data-storage:instructions.md","_source":"local_fs","_file":"modules/Data-processing-and-data-storage/instructions.md","_extension":"md","plainText":"---\ntitle: Unit 7 Instructions \ntype: reading\norder: 2\n---\n\n### Instructions \n\nTo complete Unit 7, you are expected to:\n\n - Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach.\n\n - Please send the list of questions to your coach one day before.\n\n - Practical hands-on for this unit are provided by the material used for eScience Center External Training program [3]. \n You can do the hands-on individually or join a the eScience Center external workshop. \n Check the eScience [Digital-skills](https://www.esciencecenter.nl/digital-skills/) for the workshops schedule, \n contact the [eScience Center Training](mailto:training@esciencecenter.nl) to check whether there is still space for you to join.\n"},{"_path":"/modules/data-processing-and-data-storage/slides-data-processing-and-data-storage","_dir":"data-processing-and-data-storage","_draft":false,"_partial":false,"_locale":"","title":"Data-processing-and-data-storage","description":"===","type":"slides","order":3,"body":{"type":"root","children":[{"type":"element","tag":"h1","props":{"id":"data-processing-and-data-storage"},"children":[{"type":"text","value":"Data-processing-and-data-storage"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"h2","props":{"id":"data-processing-and-data-storage"},"children":[{"type":"text","value":"Data-processing-and-data-storage "},{"type":"element","tag":"todo","props":{},"children":[]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"http://www.esciencecenter.nl","rel":["nofollow"]},"children":[{"type":"text","value":"www.esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"mailto:info@esciencecenter.nl"},"children":[{"type":"text","value":"info@esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"020 - 460 47 70"}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"data-processing-and-data-storage","depth":2,"text":"Data-processing-and-data-storage "}]}},"_type":"markdown","_id":"local_fs:modules:Data-processing-and-data-storage:slides-data-processing-and-data-storage.md","_source":"local_fs","_file":"modules/Data-processing-and-data-storage/slides-data-processing-and-data-storage.md","_extension":"md","plainText":"---\ntitle: Data-processing-and-data-storage \ntype: slides\norder: 3\n---\n\n\n\n# Data-processing-and-data-storage \n\n===\n\n\n\n## Data-processing-and-data-storage \n \n\n===\n\n\n\nwww.esciencecenter.nl\n\ninfo@esciencecenter.nl\n \n020 - 460 47 70 \n"},{"_path":"/modules/data-processing-and-data-storage/teaching_material","_dir":"data-processing-and-data-storage","_draft":false,"_partial":false,"_locale":"","title":"Teaching Material","description":"","type":"exercise","order":3,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"teaching-material"},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Teaching Material"}]}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Data Preprocessing, Cleaning/Normalization, Mark Crowley "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=WPXQbMabSWI","rel":["nofollow"]},"children":[{"type":"text","value":"online lecture, 45mn"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Fundamentals of data storage and access: "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=O_c7lzNbcKo&list=PLTCrU9sGyburBw9wNOHebv9SjlE4Elv5a&index=6","rel":["nofollow"]},"children":[{"type":"text","value":"database types, relational and NoSQL, 18mn"}]},{"type":"text","value":" "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=YCb-tDQWrXk","rel":["nofollow"]},"children":[{"type":"text","value":"Sharding, 17mn"}]},{"type":"text","value":" "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=J6CBdSCB_fY&list=PLTCrU9sGyburBw9wNOHebv9SjlE4Elv5a&index=11","rel":["nofollow"]},"children":[{"type":"text","value":"messsage queues, 22mn"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Introduction to Descriptive Statistics "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=QoQbR4lVLrs","rel":["nofollow"]},"children":[{"type":"text","value":"descriptive statistics, 13mn"}]},{"type":"text","value":" and "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=y_-QP9QLoLo","rel":["nofollow"]},"children":[{"type":"text","value":"data visualization methods, 60mn"}]}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Time expected to complete this unit: "},{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"4 hours"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"teaching-material","depth":3,"text":"Teaching Material"}]}},"_type":"markdown","_id":"local_fs:modules:Data-processing-and-data-storage:teaching_material.md","_source":"local_fs","_file":"modules/Data-processing-and-data-storage/teaching_material.md","_extension":"md","plainText":"---\ntitle: Teaching Material \ntype: exercise\norder: 3\n---\n\n### **Teaching Material**\n\n- Data Preprocessing, Cleaning/Normalization, Mark Crowley [online lecture, 45mn](https://www.youtube.com/watch?v=WPXQbMabSWI)\n\n- Fundamentals of data storage and access: [database types, relational and NoSQL, 18mn](https://www.youtube.com/watch?v=O_c7lzNbcKo&list=PLTCrU9sGyburBw9wNOHebv9SjlE4Elv5a&index=6) [Sharding, 17mn](https://www.youtube.com/watch?v=YCb-tDQWrXk) [messsage queues, 22mn](https://www.youtube.com/watch?v=J6CBdSCB_fY&list=PLTCrU9sGyburBw9wNOHebv9SjlE4Elv5a&index=11) \n\n- Introduction to Descriptive Statistics [descriptive statistics, 13mn](https://www.youtube.com/watch?v=QoQbR4lVLrs) and [data visualization methods, 60mn](https://www.youtube.com/watch?v=y_-QP9QLoLo)\n\n \nTime expected to complete this unit: **4 hours** \n"},{"_path":"/modules/data-structure-and-algorithm-complexity/context","_dir":"data-structure-and-algorithm-complexity","_draft":false,"_partial":false,"_locale":"","title":"Background unit 3","description":"","type":"reading","order":1,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"background"},"children":[{"type":"text","value":"Background"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Data structures are fundamental concepts in computer science which have a direct impact on the performance of a program. Today, in the Big Data era, understanding the basic features of data structures is a key factor which will help you to write programs that perform well and that can scale. Often, when we propose new algorithms and implement them, we have the tendency to test the implementation on a small (toy) data set, which does not give an accurate idea on the computational complexity of these algorithms. Certain algorithms might lead to long computations time or even impossible to complete within reasonable time. A Better metric for measuring the amount of time and/or space required by an algorithm for an input of a given size (n) is the algorithm complexity."}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"background","depth":3,"text":"Background"}]}},"_type":"markdown","_id":"local_fs:modules:Data-structure-and-Algorithm-complexity:context.md","_source":"local_fs","_file":"modules/Data-structure-and-Algorithm-complexity/context.md","_extension":"md","plainText":"---\ntitle: Background unit 3\ntype: reading\norder: 1\n---\n\n### Background \nData structures are fundamental concepts in computer science which have a direct impact on the performance of a program. Today, in the Big Data era, understanding the basic features of data structures is a key factor which will help you to write programs that perform well and that can scale. 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A Better metric for measuring the amount of time and/or space required by an algorithm for an input of a given size (n) is the algorithm complexity. \n"},{"_path":"/modules/data-structure-and-algorithm-complexity/further_reading","_dir":"data-structure-and-algorithm-complexity","_draft":false,"_partial":false,"_locale":"","title":"Further Reading","description":"","type":"reading","order":5,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"further-reading"},"children":[{"type":"text","value":"Further Reading"}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Data Structures and Algorithms, by John Bullinaria, School of Computer Science University of Birmingham "},{"type":"element","tag":"a","props":{"href":"https://www.cs.bham.ac.uk/~jxb/DSA/dsa.pdf","rel":["nofollow"]},"children":[{"type":"text","value":"Lecture Notes"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Data Structures and Algorithms in Python? by freeCodeCamp.org "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=pkYVOmU3MgA","rel":["nofollow"]},"children":[{"type":"text","value":"online course"}]}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"further-reading","depth":3,"text":"Further Reading"}]}},"_type":"markdown","_id":"local_fs:modules:Data-structure-and-Algorithm-complexity:further_reading.md","_source":"local_fs","_file":"modules/Data-structure-and-Algorithm-complexity/further_reading.md","_extension":"md","plainText":"---\ntitle: Further Reading \ntype: reading\norder: 5\n---\n\n### Further Reading\n\n- Data Structures and Algorithms, by John Bullinaria, School of Computer Science University of Birmingham [Lecture Notes](https://www.cs.bham.ac.uk/~jxb/DSA/dsa.pdf)\n\n- Data Structures and Algorithms in Python? by freeCodeCamp.org [online course](https://www.youtube.com/watch?v=pkYVOmU3MgA)\n"},{"_path":"/modules/data-structure-and-algorithm-complexity","_dir":"modules","_draft":false,"_partial":false,"_locale":"","title":"Data structures and algorithm complexity","description":"Photo by TODO on Unsplash","category":"Module1","order":3,"author":"eScience Center","abstract":null,"thumbnail":"data-structure-algorithms.jpeg","visibility":"visible","body":{"type":"root","children":[{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Photo by "},{"type":"element","tag":"a","props":{"href":""},"children":[{"type":"text","value":"TODO"}]},{"type":"text","value":" on "},{"type":"element","tag":"a","props":{"href":"https://csharp-station.com/Tutorial/CSharp/Lesson19"},"children":[{"type":"text","value":"Unsplash"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:Data-structure-and-Algorithm-complexity:index.md","_source":"local_fs","_file":"modules/Data-structure-and-Algorithm-complexity/index.md","_extension":"md","plainText":"---\ntitle: Data structures and algorithm complexity \ncategory: Module1\norder: 3 \nauthor: eScience Center\nabstract: \nthumbnail: \"data-structure-algorithms.jpeg\"\nvisibility: visible\n---\n\n\nPhoto by TODO on Unsplash\n \n \n"},{"_path":"/modules/data-structure-and-algorithm-complexity/info","_dir":"data-structure-and-algorithm-complexity","_draft":false,"_partial":false,"_locale":"","title":"Learning objectives","description":"after completing unit 3 you will have acquired a basic understanding of the various data structures and will be able to make an informed decision about the data structure you will be using in your projects.","type":"info","order":0,"body":{"type":"root","children":[{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"after completing unit 3 you will have acquired a basic understanding of the various data structures and will be able to make an informed decision about the data structure you will be using in your projects."}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Understand the Role of Data Structures in Performance: Learners will be able to explain how the choice of data structures impacts the performance and scalability of programs."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Evaluate Algorithm Performance with Complexity Analysis: Learners will be basic understanding of the computational complexity of algorithms using Big-O notation."}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:Data-structure-and-Algorithm-complexity:info.md","_source":"local_fs","_file":"modules/Data-structure-and-Algorithm-complexity/info.md","_extension":"md","plainText":"---\ntitle: Learning objectives\ntype: info\norder: 0\n---\nafter completing unit 3 you will have acquired a basic understanding of the various data structures and will be able to make an informed decision about the data structure you will be using in your projects. \n\n- Understand the Role of Data Structures in Performance: Learners will be able to explain how the choice of data structures impacts the performance and scalability of programs.\n\n- Evaluate Algorithm Performance with Complexity Analysis: Learners will be basic understanding of the computational complexity of algorithms using Big-O notation.\n\n"},{"_path":"/modules/data-structure-and-algorithm-complexity/instructions","_dir":"data-structure-and-algorithm-complexity","_draft":false,"_partial":false,"_locale":"","title":"Unit 3 Instructions","description":"","type":"reading","order":2,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"instructions"},"children":[{"type":"text","value":"Instructions"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"To complete Unit 3, you are expected to:"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Watch the suggested teaching material."}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach."}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Please send the list of questions to your coach one day before."}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Important: In this unit the proposed material "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=8hly31xKli0&t=854s","rel":["nofollow"]},"children":[{"type":"text","value":"teaching material 1"}]},{"type":"text","value":" contains some hands-on assignments. It is crucial to pause the video and perform the hands-on work on your laptop."}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Time expected to complete this unit: "},{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"7 hours"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"instructions","depth":3,"text":"Instructions"}]}},"_type":"markdown","_id":"local_fs:modules:Data-structure-and-Algorithm-complexity:instructions.md","_source":"local_fs","_file":"modules/Data-structure-and-Algorithm-complexity/instructions.md","_extension":"md","plainText":"---\ntitle: Unit 3 Instructions \ntype: reading\norder: 2\n---\n\n### Instructions \n\nTo complete Unit 3, you are expected to: \n\nWatch the suggested teaching material. \n\nPrepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach. \n\nPlease send the list of questions to your coach one day before. \n\nImportant: In this unit the proposed material [teaching material 1](https://www.youtube.com/watch?v=8hly31xKli0&t=854s) contains some hands-on assignments. It is crucial to pause the video and perform the hands-on work on your laptop. \n\nTime expected to complete this unit: **7 hours**\n"},{"_path":"/modules/data-structure-and-algorithm-complexity/slides-data-structure-and-algorithm-complexity","_dir":"data-structure-and-algorithm-complexity","_draft":false,"_partial":false,"_locale":"","title":"Data-structure-and-Algorithm-complexity","description":"===","type":"slides","order":3,"body":{"type":"root","children":[{"type":"element","tag":"h1","props":{"id":"data-structure-and-algorithm-complexity"},"children":[{"type":"text","value":"Data-structure-and-Algorithm-complexity"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"h2","props":{"id":"data-structure-and-algorithm-complexity"},"children":[{"type":"text","value":"Data-structure-and-Algorithm-complexity "},{"type":"element","tag":"todo","props":{},"children":[]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"http://www.esciencecenter.nl","rel":["nofollow"]},"children":[{"type":"text","value":"www.esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"mailto:info@esciencecenter.nl"},"children":[{"type":"text","value":"info@esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"020 - 460 47 70"}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"data-structure-and-algorithm-complexity","depth":2,"text":"Data-structure-and-Algorithm-complexity "}]}},"_type":"markdown","_id":"local_fs:modules:Data-structure-and-Algorithm-complexity:slides-Data-structure-and-Algorithm-complexity.md","_source":"local_fs","_file":"modules/Data-structure-and-Algorithm-complexity/slides-Data-structure-and-Algorithm-complexity.md","_extension":"md","plainText":"---\ntitle: Data-structure-and-Algorithm-complexity \ntype: slides\norder: 3\n---\n\n\n\n# Data-structure-and-Algorithm-complexity \n\n===\n\n\n\n## Data-structure-and-Algorithm-complexity \n \n\n===\n\n\n\nwww.esciencecenter.nl\n\ninfo@esciencecenter.nl\n \n020 - 460 47 70 \n"},{"_path":"/modules/data-structure-and-algorithm-complexity/teaching_material","_dir":"data-structure-and-algorithm-complexity","_draft":false,"_partial":false,"_locale":"","title":"Teaching Material","description":"","type":"exercise","order":3,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"teaching-material"},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Teaching Material"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Data structure, Algorithms, sorting & searching, freeCodeCamp.org "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=8hly31xKli0&t=854s","rel":["nofollow"]},"children":[{"type":"text","value":"Course"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"teaching-material","depth":3,"text":"Teaching Material"}]}},"_type":"markdown","_id":"local_fs:modules:Data-structure-and-Algorithm-complexity:teaching_material.md","_source":"local_fs","_file":"modules/Data-structure-and-Algorithm-complexity/teaching_material.md","_extension":"md","plainText":"---\ntitle: Teaching Material \ntype: exercise\norder: 3\n---\n\n### **Teaching Material**\n\nData structure, Algorithms, sorting & searching, freeCodeCamp.org [Course](https://www.youtube.com/watch?v=8hly31xKli0&t=854s)\n\n"},{"_path":"/modules/github-the-basics/context","_dir":"github-the-basics","_draft":false,"_partial":false,"_locale":"","title":"Background unit 1","description":"","type":"reading","order":1,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"background"},"children":[{"type":"text","value":"Background"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Millions of developers and companies build, ship, and maintain their software on GitHub — the largest and most advanced development platform in the world. At the eScience center GitHub is the main instrument used during the development of all projects, as an RSE at the center you will be using GitHub day in day out in your work. It is thus crucial that you learn the basics of GitHub as soon as possible to become operational and effective."}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"background","depth":3,"text":"Background"}]}},"_type":"markdown","_id":"local_fs:modules:Github-the-basics:context.md","_source":"local_fs","_file":"modules/Github-the-basics/context.md","_extension":"md","plainText":"---\ntitle: Background unit 1 \ntype: reading\norder: 1\n---\n\n### Background \nMillions of developers and companies build, ship, and maintain their software on GitHub — the largest and most advanced development platform in the world. At the eScience center GitHub is the main instrument used during the development of all projects, as an RSE at the center you will be using GitHub day in day out in your work. It is thus crucial that you learn the basics of GitHub as soon as possible to become operational and effective.\n"},{"_path":"/modules/github-the-basics/further_reading","_dir":"github-the-basics","_draft":false,"_partial":false,"_locale":"","title":"Further Reading","description":"","type":"reading","order":5,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"further-reading"},"children":[{"type":"text","value":"Further Reading"}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"further-reading","depth":3,"text":"Further Reading"}]}},"_type":"markdown","_id":"local_fs:modules:Github-the-basics:further_reading.md","_source":"local_fs","_file":"modules/Github-the-basics/further_reading.md","_extension":"md","plainText":"---\ntitle: Further Reading \ntype: reading\norder: 5\n---\n\n### Further Reading\n\n"},{"_path":"/modules/github-the-basics","_dir":"modules","_draft":false,"_partial":false,"_locale":"","title":"GitHub the 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\"Git-and-GitHub-Basics-Course-The-Construct.jpg\"\nvisibility: visible\n---\n\n\nPhoto by TODO on Unsplash\n \n \n"},{"_path":"/modules/github-the-basics/info","_dir":"github-the-basics","_draft":false,"_partial":false,"_locale":"","title":"Learning objectives","description":"","type":"info","order":0,"body":{"type":"root","children":[{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Understand the Basics of GitHub: Learners will be able to explain the fundamental concepts of GitHub, including version control, repositories, and the basic Git commands such as commit, add, and push, which are essential for day-to-day development tasks."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Apply GitHub for Collaborative Software Development: Learners will be able to use GitHub effectively for collaborative projects, understanding how to manage repositories, contribute to shared codebases, and track changes through commits and branches."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Navigate and Utilize GitHub Learning Resources: Learners will be able to leverage official GitHub documentation, GitHub Learning Lab, and other tutorials to enhance their GitHub skills and troubleshoot common issues, becoming more efficient in using GitHub for their development work."}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:Github-the-basics:info.md","_source":"local_fs","_file":"modules/Github-the-basics/info.md","_extension":"md","plainText":"---\ntitle: Learning objectives\ntype: info\norder: 0\n---\n\n- Understand the Basics of GitHub: Learners will be able to explain the fundamental concepts of GitHub, including version control, repositories, and the basic Git commands such as commit, add, and push, which are essential for day-to-day development tasks.\n\n- Apply GitHub for Collaborative Software Development: Learners will be able to use GitHub effectively for collaborative projects, understanding how to manage repositories, contribute to shared codebases, and track changes through commits and branches.\n\n- Navigate and Utilize GitHub Learning Resources: Learners will be able to leverage official GitHub documentation, GitHub Learning Lab, and other tutorials to enhance their GitHub skills and troubleshoot common issues, becoming more efficient in using GitHub for their development work.\n"},{"_path":"/modules/github-the-basics/instructions","_dir":"github-the-basics","_draft":false,"_partial":false,"_locale":"","title":"Unit 1 Instructions","description":"","type":"reading","order":2,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"instructions"},"children":[{"type":"text","value":"Instructions"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"When it comes to GitHub there is plenty of online material which can help you to learn how to use GitHub starting from the official GitHub documentation "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"1"}]},{"type":"text","value":" or the GitHub learning Lab "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"2"}]},{"type":"text","value":" a bot which will take you through a series of practical projects to learn to complete Tutorial/courses for beginners "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"3"}]},{"type":"text","value":" "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"4"}]},{"type":"text","value":". "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"3"}]},{"type":"text","value":" is one 1-hour Crash Course for beginners, it explains the most GitHub commands you need to know about to start using GitHub (commit, add, push …) the course shows life demos of the GitHub commands covered in the courses. "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"4"}]},{"type":"text","value":" is very similar to "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"3"}]},{"type":"text","value":" but it is structured as a set of short videos covering various GitHub commands"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"To complete Unit 1, you are expected to:"}]}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Read/watch the suggested "},{"type":"element","tag":"a","props":{"href":"http://localhost:3000/internal-training/modules/Software-testing/teaching_material","rel":["nofollow"]},"children":[{"type":"text","value":"teaching material"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Please send the list of questions to your coach one day before the weekly meetings.."}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Time expected to complete this unit: "},{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"4 hours"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"instructions","depth":3,"text":"Instructions"}]}},"_type":"markdown","_id":"local_fs:modules:Github-the-basics:instructions.md","_source":"local_fs","_file":"modules/Github-the-basics/instructions.md","_extension":"md","plainText":"---\ntitle: Unit 1 Instructions \ntype: reading\norder: 2\n---\n\n### Instructions \n\nWhen it comes to GitHub there is plenty of online material which can help you to learn how to use GitHub starting from the official GitHub documentation [1] or the GitHub learning Lab [2] a bot which will take you through a series of practical projects to learn to complete Tutorial/courses for beginners [3] [4]. [3] is one 1-hour Crash Course for beginners, it explains the most GitHub commands you need to know about to start using GitHub (commit, add, push …) the course shows life demos of the GitHub commands covered in the courses. [4] is very similar to [3] but it is structured as a set of short videos covering various GitHub commands \n \n**To complete Unit 1, you are expected to:** \n\n - Read/watch the suggested [teaching material](http://localhost:3000/internal-training/modules/Software-testing/teaching_material) \n - Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach. \n - Please send the list of questions to your coach one day before the weekly meetings.. \n\nTime expected to complete this unit: **4 hours**\n"},{"_path":"/modules/github-the-basics/slides-github-the-basics","_dir":"github-the-basics","_draft":false,"_partial":false,"_locale":"","title":"GitHub the basics","description":"===","type":"slides","order":3,"body":{"type":"root","children":[{"type":"element","tag":"h1","props":{"id":"github-the-basics"},"children":[{"type":"text","value":"GitHub the basics"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"h2","props":{"id":"github-the-basics"},"children":[{"type":"text","value":"GitHub the basics "},{"type":"element","tag":"todo","props":{},"children":[]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"http://www.esciencecenter.nl","rel":["nofollow"]},"children":[{"type":"text","value":"www.esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"mailto:info@esciencecenter.nl"},"children":[{"type":"text","value":"info@esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"020 - 460 47 70"}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"github-the-basics","depth":2,"text":"GitHub the basics "}]}},"_type":"markdown","_id":"local_fs:modules:Github-the-basics:slides-github-the-basics.md","_source":"local_fs","_file":"modules/Github-the-basics/slides-github-the-basics.md","_extension":"md","plainText":"---\ntitle: GitHub the basics \ntype: slides\norder: 3\n---\n\n\n\n# GitHub the basics\n\n===\n\n\n\n## GitHub the basics \n \n\n===\n\n\n\nwww.esciencecenter.nl\n\ninfo@esciencecenter.nl\n \n020 - 460 47 70 \n"},{"_path":"/modules/github-the-basics/teaching_material","_dir":"github-the-basics","_draft":false,"_partial":false,"_locale":"","title":"Teaching Material","description":"","type":"exercise","order":3,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"teaching-material"},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Teaching Material"}]}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"GitHub online documentation: QuickStart "},{"type":"element","tag":"a","props":{"href":"https://docs.github.com/en/get-started/quickstart","rel":["nofollow"]},"children":[{"type":"text","value":"Online Documentation"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"GitHub Learning Lab "},{"type":"element","tag":"a","props":{"href":"ihttps://github.com/marketplace/github-learning-lab"},"children":[{"type":"text","value":"GitHub bot"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Git and GitHub for Beginners - Crash Course "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=RGOj5yH7evk","rel":["nofollow"]},"children":[{"type":"text","value":"Tutorial"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"it & GitHub Tutorial for Beginners #1 - Why Use Git? "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=3RjQznt-8kE&list=PL4cUxeGkcC9goXbgTDQ0n_4TBzOO0ocPR&index=2","rel":["nofollow"]},"children":[{"type":"text","value":"Tutorial"}]}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"teaching-material","depth":3,"text":"Teaching Material"}]}},"_type":"markdown","_id":"local_fs:modules:Github-the-basics:teaching_material.md","_source":"local_fs","_file":"modules/Github-the-basics/teaching_material.md","_extension":"md","plainText":"---\ntitle: Teaching Material \ntype: exercise\norder: 3\n---\n\n### **Teaching Material**\n\n- GitHub online documentation: QuickStart [Online Documentation](https://docs.github.com/en/get-started/quickstart)\n- GitHub Learning Lab [GitHub bot](ihttps://github.com/marketplace/github-learning-lab)\n- Git and GitHub for Beginners - Crash Course [Tutorial](https://www.youtube.com/watch?v=RGOj5yH7evk)\n- it & GitHub Tutorial for Beginners #1 - Why Use Git? [Tutorial](https://www.youtube.com/watch?v=3RjQznt-8kE&list=PL4cUxeGkcC9goXbgTDQ0n_4TBzOO0ocPR&index=2) \n"},{"_path":"/modules/human-aspects-of-software-engineering/context","_dir":"human-aspects-of-software-engineering","_draft":false,"_partial":false,"_locale":"","title":"Background unit 2","description":"","type":"reading","order":1,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"background"},"children":[{"type":"text","value":"Background"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Solving the technical aspects is not enough to build reliable, enduring, resilient software and systems. Human aspects are also vital to the successful completion of a software project. Human factors are nowadays part of mainstream software engineering education to elevate job satisfaction, improve performance, and increase productivity of software engineers. In Unit 2, we spend some time to reflect on these factors and their impact on the daily work of RSEs at the eScience center."}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"background","depth":3,"text":"Background"}]}},"_type":"markdown","_id":"local_fs:modules:Human-aspects-of-software-engineering:context.md","_source":"local_fs","_file":"modules/Human-aspects-of-software-engineering/context.md","_extension":"md","plainText":"---\ntitle: Background unit 2 \ntype: reading\norder: 1 \n---\n\n### Background \nSolving the technical aspects is not enough to build reliable, enduring, resilient software and systems. Human aspects are also vital to the successful completion of a software project. Human factors are nowadays part of mainstream software engineering education to elevate job satisfaction, improve performance, and increase productivity of software engineers. In Unit 2, we spend some time to reflect on these factors and their impact on the daily work of RSEs at the eScience center.\n"},{"_path":"/modules/human-aspects-of-software-engineering/further_reading","_dir":"human-aspects-of-software-engineering","_draft":false,"_partial":false,"_locale":"","title":"Further Reading","description":"","type":"reading","order":6,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"further-reading"},"children":[{"type":"text","value":"Further Reading"}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"further-reading","depth":3,"text":"Further Reading"}]}},"_type":"markdown","_id":"local_fs:modules:Human-aspects-of-software-engineering:further_reading.md","_source":"local_fs","_file":"modules/Human-aspects-of-software-engineering/further_reading.md","_extension":"md","plainText":"---\ntitle: Further Reading \ntype: reading\norder: 6\n---\n\n### Further Reading\n \n"},{"_path":"/modules/human-aspects-of-software-engineering","_dir":"modules","_draft":false,"_partial":false,"_locale":"","title":"Human aspects of Software Engineering","description":"Photo by TODO on Unsplash","category":"Module4","order":2,"author":"eScience Center","abstract":null,"thumbnail":"human-aspects-of-software-engineering.jpg","visibility":"visible","body":{"type":"root","children":[{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Photo by "},{"type":"element","tag":"a","props":{"href":""},"children":[{"type":"text","value":"TODO"}]},{"type":"text","value":" on 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objectives","description":"","type":"info","order":0,"body":{"type":"root","children":[{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Recognize the Impact of Human Factors on Software Development: Learners will be able to identify key human factors that influence the success of software projects, including communication, culture, and team dynamics, and understand how these factors affect both performance and productivity."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Address Conflicts and Culture Clashes in Software Teams: Learners will be able to recognize and address potential conflicts and culture clashes within software development teams, using strategies to minimize tension and foster a collaborative and productive working environment."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Enhance Personal Performance and Well-being in Software Engineering: Learners will be able to apply principles from Human Software Engineering to improve their own performance, manage stress, and optimize their working environment, ensuring long-term success and job satisfaction."}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:Human-aspects-of-software-engineering:info.md","_source":"local_fs","_file":"modules/Human-aspects-of-software-engineering/info.md","_extension":"md","plainText":"---\ntitle: Learning objectives\ntype: info\norder: 0\n---\n\n\n- Recognize the Impact of Human Factors on Software Development: Learners will be able to identify key human factors that influence the success of software projects, including communication, culture, and team dynamics, and understand how these factors affect both performance and productivity.\n\n- Address Conflicts and Culture Clashes in Software Teams: Learners will be able to recognize and address potential conflicts and culture clashes within software development teams, using strategies to minimize tension and foster a collaborative and productive working environment.\n\n- Enhance Personal Performance and Well-being in Software Engineering: Learners will be able to apply principles from Human Software Engineering to improve their own performance, manage stress, and optimize their working environment, ensuring long-term success and job satisfaction.\n"},{"_path":"/modules/human-aspects-of-software-engineering/instructions","_dir":"human-aspects-of-software-engineering","_draft":false,"_partial":false,"_locale":"","title":"Unit 2 Instructions","description":"","type":"reading","order":2,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"instructions"},"children":[{"type":"text","value":"Instructions"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"For Unit 2, we selected three references which highlight the human aspect of Software engineering and their impact on your research project. "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"1"}]},{"type":"text","value":" is talk given at The Lead Developer UK conference 2017, it explains potential conflicts that can arise during software development. Culture clashes can cause quite a bit of tension and frustration and could hamper the progress of the project. "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"2"}]},{"type":"text","value":" is a lecture on Human Software Engineering explains how to survive, optimize performance, and thrive in the modern working environment. "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"3"}]},{"type":"text","value":" is a podcast roundtable discussing the human factors that impact software engineering, from communication tools they use to the environment that they work."}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"To complete Unit 2, you are expected to:"}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Read/watch the suggested teaching material."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Please send the list of questions to your coach one day before."}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Important: the proposed material includes hands-on assignments. Do try them and if you encounter issues you cannot solve, do share them with your coach."}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Time expected to complete this unit: "},{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"4 hours"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"instructions","depth":3,"text":"Instructions"}]}},"_type":"markdown","_id":"local_fs:modules:Human-aspects-of-software-engineering:instructions.md","_source":"local_fs","_file":"modules/Human-aspects-of-software-engineering/instructions.md","_extension":"md","plainText":"---\ntitle: Unit 2 Instructions \ntype: reading\norder: 2\n---\n\n### Instructions \n\nFor Unit 2, we selected three references which highlight the human aspect of Software engineering and their impact on your research project. [1] is talk given at The Lead Developer UK conference 2017, it explains potential conflicts that can arise during software development. Culture clashes can cause quite a bit of tension and frustration and could hamper the progress of the project. [2] is a lecture on Human Software Engineering explains how to survive, optimize performance, and thrive in the modern working environment. [3] is a podcast roundtable discussing the human factors that impact software engineering, from communication tools they use to the environment that they work. \n\nTo complete Unit 2, you are expected to: \n\n - Read/watch the suggested teaching material. \n\n - Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach. \n\n - Please send the list of questions to your coach one day before. \n\nImportant: the proposed material includes hands-on assignments. Do try them and if you encounter issues you cannot solve, do share them with your coach. \n\nTime expected to complete this unit: **4 hours**\n"},{"_path":"/modules/human-aspects-of-software-engineering/slides-human-aspects-of-software-engineering","_dir":"human-aspects-of-software-engineering","_draft":false,"_partial":false,"_locale":"","title":"human aspects of software engineering","description":"===","type":"slides","order":3,"body":{"type":"root","children":[{"type":"element","tag":"h1","props":{"id":"human-aspects-of-software-engineering"},"children":[{"type":"text","value":"human aspects of software engineering"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"h2","props":{"id":"human-aspects-of-software-engineering"},"children":[{"type":"text","value":"human aspects of software engineering "},{"type":"element","tag":"todo","props":{},"children":[]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"http://www.esciencecenter.nl","rel":["nofollow"]},"children":[{"type":"text","value":"www.esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"mailto:info@esciencecenter.nl"},"children":[{"type":"text","value":"info@esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"020 - 460 47 70"}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"human-aspects-of-software-engineering","depth":2,"text":"human aspects of software engineering "}]}},"_type":"markdown","_id":"local_fs:modules:Human-aspects-of-software-engineering:slides-human-aspects-of-software-engineering.md","_source":"local_fs","_file":"modules/Human-aspects-of-software-engineering/slides-human-aspects-of-software-engineering.md","_extension":"md","plainText":"---\ntitle: human aspects of software engineering \ntype: slides\norder: 3\n---\n\n\n\n# human aspects of software engineering\n\n===\n\n\n\n## human aspects of software engineering \n \n\n===\n\n\n\nwww.esciencecenter.nl\n\ninfo@esciencecenter.nl\n \n020 - 460 47 70 \n"},{"_path":"/modules/human-aspects-of-software-engineering/teaching_material","_dir":"human-aspects-of-software-engineering","_draft":false,"_partial":false,"_locale":"","title":"Teaching Material","description":"","type":"exercise","order":5,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"teaching-material"},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Teaching Material"}]}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Cultural Differences Affect the Social Aspect of Software Engineering "},{"type":"element","tag":"a","props":{"href":"ihttps://youtu.be/FxTXf6qyaGk"},"children":[{"type":"text","value":"Conferenc"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Tom Stone - Human Software Engineering "},{"type":"element","tag":"a","props":{"href":"ihttps://www.youtube.com/watch?v=s70sOOZLoCI"},"children":[{"type":"text","value":"OnlineLecture"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Human Factors in Software Engineering, Carnegie Mellon University "},{"type":"element","tag":"a","props":{"href":"ihttps://www.youtube.com/watch?v=446cZSgSjTk"},"children":[{"type":"text","value":"Podcast"}]}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"teaching-material","depth":3,"text":"Teaching Material"}]}},"_type":"markdown","_id":"local_fs:modules:Human-aspects-of-software-engineering:teaching_material.md","_source":"local_fs","_file":"modules/Human-aspects-of-software-engineering/teaching_material.md","_extension":"md","plainText":"---\ntitle: Teaching Material \ntype: exercise\norder: 5\n---\n\n### **Teaching Material**\n\n- Cultural Differences Affect the Social Aspect of Software Engineering [Conferenc](ihttps://youtu.be/FxTXf6qyaGk)\n- Tom Stone - Human Software Engineering [OnlineLecture](ihttps://www.youtube.com/watch?v=s70sOOZLoCI)\n- Human Factors in Software Engineering, Carnegie Mellon University [Podcast](ihttps://www.youtube.com/watch?v=446cZSgSjTk) \n"},{"_path":"/modules/licensing/context","_dir":"licensing","_draft":false,"_partial":false,"_locale":"","title":"Background unit 5","description":"","type":"reading","order":1,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"background"},"children":[{"type":"text","value":"Background"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"While it is strongly suggested to use open-source libraries and frameworks, often open-source libraries and frameworks are distributed under licenses that are specifically designed to prevent certain type of usage for example using them in closed-source software. It is important to understand how different types of open-source and free software licenses work, and how you can use them in your research projects at the center. It is important to note here that the licensing policy of the center is to release all software under the Apache 2 license. In Unit 5 we look at what a few of the different licenses are, and how they work."}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"background","depth":3,"text":"Background"}]}},"_type":"markdown","_id":"local_fs:modules:Licensing:context.md","_source":"local_fs","_file":"modules/Licensing/context.md","_extension":"md","plainText":"---\ntitle: Background unit 5 \ntype: reading\norder: 1 \n---\n\n### Background \nWhile it is strongly suggested to use open-source libraries and frameworks, often open-source libraries and frameworks are distributed under licenses that are specifically designed to prevent certain type of usage for example using them in closed-source software. It is important to understand how different types of open-source and free software licenses work, and how you can use them in your research projects at the center. It is important to note here that the licensing policy of the center is to release all software under the Apache 2 license. In Unit 5 we look at what a few of the different licenses are, and how they work.\n"},{"_path":"/modules/licensing/further_reading","_dir":"licensing","_draft":false,"_partial":false,"_locale":"","title":"Further Reading","description":"","type":"reading","order":6,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"further-reading"},"children":[{"type":"text","value":"Further Reading"}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"further-reading","depth":3,"text":"Further Reading"}]}},"_type":"markdown","_id":"local_fs:modules:Licensing:further_reading.md","_source":"local_fs","_file":"modules/Licensing/further_reading.md","_extension":"md","plainText":"---\ntitle: Further Reading \ntype: reading\norder: 6\n---\n\n### Further Reading\n"},{"_path":"/modules/licensing","_dir":"modules","_draft":false,"_partial":false,"_locale":"","title":"Licensing","description":"Photo by TODO on Unsplash","category":"Module4","order":5,"author":"eScience Center","abstract":null,"thumbnail":"software-license.jpg","visibility":"visible","body":{"type":"root","children":[{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Photo by "},{"type":"element","tag":"a","props":{"href":""},"children":[{"type":"text","value":"TODO"}]},{"type":"text","value":" on "},{"type":"element","tag":"a","props":{"href":"https://csharp-station.com/Tutorial/CSharp/Lesson19"},"children":[{"type":"text","value":"Unsplash"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:Licensing:index.md","_source":"local_fs","_file":"modules/Licensing/index.md","_extension":"md","plainText":"---\ntitle: Licensing \ncategory: Module4\norder: 5 \nauthor: eScience Center\nabstract: \nthumbnail: \"software-license.jpg\"\nvisibility: visible\n---\n\n\nPhoto by TODO on Unsplash\n \n \n"},{"_path":"/modules/licensing/info","_dir":"licensing","_draft":false,"_partial":false,"_locale":"","title":"Learning objectives","description":"","type":"info","order":0,"body":{"type":"root","children":[{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Understand the Value and Impact of Open-Source Software Licenses: Learners will be able to describe the fundamental values of open-source software and explain how licensing can affect the usage, distribution, and contribution to projects."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Identify the Different Types of Open-Source Licenses: Learners will be able to distinguish between the three main types of open-source licenses, understand their key differences, and determine which license is appropriate for different types of projects.\nSelect the Appropriate License for Your Research Projects"}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Learners will be able to navigate through various licensing options and choose the most suitable open-source license, such as Apache 2, for their software based on project needs and center policies."}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:Licensing:info.md","_source":"local_fs","_file":"modules/Licensing/info.md","_extension":"md","plainText":"---\ntitle: Learning objectives\ntype: info\norder: 0\n---\n\n\n- Understand the Value and Impact of Open-Source Software Licenses: Learners will be able to describe the fundamental values of open-source software and explain how licensing can affect the usage, distribution, and contribution to projects.\n\n- Identify the Different Types of Open-Source Licenses: Learners will be able to distinguish between the three main types of open-source licenses, understand their key differences, and determine which license is appropriate for different types of projects.\nSelect the Appropriate License for Your Research Projects\n\n- Learners will be able to navigate through various licensing options and choose the most suitable open-source license, such as Apache 2, for their software based on project needs and center policies.\n"},{"_path":"/modules/licensing/instructions","_dir":"licensing","_draft":false,"_partial":false,"_locale":"","title":"Unit 5 Instructions","description":"","type":"reading","order":2,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"instructions"},"children":[{"type":"text","value":"Instructions"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"For Unit 5, we selected three references that can help learn about the most common open-source licenses and which one to choose for different situations. "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"1"}]},{"type":"text","value":" is presentation that walks through the values of creating open-source software and how to select which type of open-source license is right for your project. You will learn three fundamental lessons: (1) The value that open-source software provides to the world. (2) An understanding of the differences between the three (3) main types of open-source licenses available. (3) Steps to follow to select the right open-source license for your project. "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"2"}]},{"type":"text","value":" is an online document from the Open source's initiative, it will walk you through all the popular licenses. Finally "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"3"}]},{"type":"text","value":" will help you to choose the licenses depending on your situation."}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"It also is essential that you read the Netherlands eScience Center policy towards publishing, licensing and Intellectual Property, as well as our IP rules for eScience Center projects. You can find the general eScience Center policy towards publishing, licensing and intellectual property "},{"type":"element","tag":"a","props":{"href":"https://nlesc.sharepoint.com/qi/Shared%20Documents/Strategies,%20Plans%20%26%20Policies/eScience%20Center%20IP%20policy%20v1.1.pdf","rel":["nofollow"]},"children":[{"type":"text","value":"here"}]},{"type":"text","value":". For eScience Center projects, we have a more specific set of IP rules. They can be hound "},{"type":"element","tag":"a","props":{"href":"https://nlesc.sharepoint.com/qi/Shared%20Documents/Strategies,%20Plans%20%26%20Policies/eScience%20Center%20IP%20rules%20for%20projects%20v1.1.pdf","rel":["nofollow"]},"children":[{"type":"text","value":"here"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"To complete Unit 5, you are expected to:"}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Read/watch the suggested teaching material."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Please send the list of questions to your coach one day before."}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Important: the proposed material includes hands-on assignments. Do try them and if you encounter issues you cannot solve, do share them with your coach."}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Time expected to complete this unit: "},{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"4 hours"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"instructions","depth":3,"text":"Instructions"}]}},"_type":"markdown","_id":"local_fs:modules:Licensing:instructions.md","_source":"local_fs","_file":"modules/Licensing/instructions.md","_extension":"md","plainText":"---\ntitle: Unit 5 Instructions \ntype: reading\norder: 2\n---\n\n### Instructions \nFor Unit 5, we selected three references that can help learn about the most common open-source licenses and which one to choose for different situations. [1] is presentation that walks through the values of creating open-source software and how to select which type of open-source license is right for your project. You will learn three fundamental lessons: (1) The value that open-source software provides to the world. (2) An understanding of the differences between the three (3) main types of open-source licenses available. (3) Steps to follow to select the right open-source license for your project. [2] is an online document from the Open source's initiative, it will walk you through all the popular licenses. Finally [3] will help you to choose the licenses depending on your situation. \n \nIt also is essential that you read the Netherlands eScience Center policy towards publishing, licensing and Intellectual Property, as well as our IP rules for eScience Center projects. You can find the general eScience Center policy towards publishing, licensing and intellectual property [here](https://nlesc.sharepoint.com/qi/Shared%20Documents/Strategies,%20Plans%20%26%20Policies/eScience%20Center%20IP%20policy%20v1.1.pdf). For eScience Center projects, we have a more specific set of IP rules. They can be hound [here](https://nlesc.sharepoint.com/qi/Shared%20Documents/Strategies,%20Plans%20%26%20Policies/eScience%20Center%20IP%20rules%20for%20projects%20v1.1.pdf)\n\nTo complete Unit 5, you are expected to: \n\n - Read/watch the suggested teaching material. \n\n - Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach. \n\n - Please send the list of questions to your coach one day before. \n\nImportant: the proposed material includes hands-on assignments. Do try them and if you encounter issues you cannot solve, do share them with your coach. \n\nTime expected to complete this unit: **4 hours**\n"},{"_path":"/modules/licensing/slides-licensing","_dir":"licensing","_draft":false,"_partial":false,"_locale":"","title":"Licensing","description":"===","type":"slides","order":3,"body":{"type":"root","children":[{"type":"element","tag":"h1","props":{"id":"licensing"},"children":[{"type":"text","value":"Licensing"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"h2","props":{"id":"licensing"},"children":[{"type":"text","value":"Licensing "},{"type":"element","tag":"todo","props":{},"children":[]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"http://www.esciencecenter.nl","rel":["nofollow"]},"children":[{"type":"text","value":"www.esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"mailto:info@esciencecenter.nl"},"children":[{"type":"text","value":"info@esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"020 - 460 47 70"}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"licensing","depth":2,"text":"Licensing "}]}},"_type":"markdown","_id":"local_fs:modules:Licensing:slides-licensing.md","_source":"local_fs","_file":"modules/Licensing/slides-licensing.md","_extension":"md","plainText":"---\ntitle: Licensing \ntype: slides\norder: 3\n---\n\n\n\n# Licensing\n\n===\n\n\n\n## Licensing \n \n\n===\n\n\n\nwww.esciencecenter.nl\n\ninfo@esciencecenter.nl\n \n020 - 460 47 70 \n"},{"_path":"/modules/licensing/teaching_material","_dir":"licensing","_draft":false,"_partial":false,"_locale":"","title":"Teaching Material","description":"","type":"exercise","order":5,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"teaching-material"},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Teaching Material"}]}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"How to Choose an Open-Source License "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=OnmWFxlG2GA","rel":["nofollow"]},"children":[{"type":"text","value":"Talk@HackBeanpot 2018"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Open-Source Licenses "},{"type":"element","tag":"a","props":{"href":"https://opensource.org/licenses","rel":["nofollow"]},"children":[{"type":"text","value":"OnlineDoc"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Choose a license "},{"type":"element","tag":"a","props":{"href":"https://choosealicense.com/","rel":["nofollow"]},"children":[{"type":"text","value":"OnlineDoc "}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"eScience Center policy towards publishing, licensing and intellectual property "},{"type":"element","tag":"a","props":{"href":"https://nlesc.sharepoint.com/qi/Shared%20Documents/Strategies,%20Plans%20%26%20Policies/eScience%20Center%20IP%20policy%20v1.1.pdf","rel":["nofollow"]},"children":[{"type":"text","value":"QI"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"IP rules for eScience Center projects "},{"type":"element","tag":"a","props":{"href":"https://nlesc.sharepoint.com/qi/Shared%20Documents/Strategies,%20Plans%20%26%20Policies/eScience%20Center%20IP%20rules%20for%20projects%20v1.1.pdf","rel":["nofollow"]},"children":[{"type":"text","value":"QI"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"The turing way Licensing-software"},{"type":"element","tag":"a","props":{"href":"https://the-turing-way.netlify.app/reproducible-research/licensing/licensing-software.html","rel":["nofollow"]},"children":[{"type":"text","value":"onlineDoc"}]}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"teaching-material","depth":3,"text":"Teaching Material"}]}},"_type":"markdown","_id":"local_fs:modules:Licensing:teaching_material.md","_source":"local_fs","_file":"modules/Licensing/teaching_material.md","_extension":"md","plainText":"---\ntitle: Teaching Material \ntype: exercise\norder: 5\n---\n\n### **Teaching Material**\n\n- How to Choose an Open-Source License [Talk@HackBeanpot 2018](https://www.youtube.com/watch?v=OnmWFxlG2GA)\n- Open-Source Licenses [OnlineDoc](https://opensource.org/licenses)\n- Choose a license [OnlineDoc ](https://choosealicense.com/)\n- eScience Center policy towards publishing, licensing and intellectual property [QI](https://nlesc.sharepoint.com/qi/Shared%20Documents/Strategies,%20Plans%20%26%20Policies/eScience%20Center%20IP%20policy%20v1.1.pdf)\n- IP rules for eScience Center projects [QI](https://nlesc.sharepoint.com/qi/Shared%20Documents/Strategies,%20Plans%20%26%20Policies/eScience%20Center%20IP%20rules%20for%20projects%20v1.1.pdf)\n- The turing way Licensing-software[onlineDoc](https://the-turing-way.netlify.app/reproducible-research/licensing/licensing-software.html) \n"},{"_path":"/modules/modularity/context","_dir":"modularity","_draft":false,"_partial":false,"_locale":"","title":"Background unit 1","description":"","type":"reading","order":1,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"background"},"children":[{"type":"text","value":"Background"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Modular programming originated back in the 1960s when developers began breaking up larger software programs into smaller parts. Although this concept has been around for six decades, it is still extremely relevant and useful for today’s software developers, and one of the key programming principles. At the eScience center, we really encourage modularity in all our software development projects as it helps the center to increase re-usability across projects and cross scientific disciplines, which is a key to the eScience domain as a whole."}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"background","depth":3,"text":"Background"}]}},"_type":"markdown","_id":"local_fs:modules:Modularity:context.md","_source":"local_fs","_file":"modules/Modularity/context.md","_extension":"md","plainText":"---\ntitle: Background unit 1 \ntype: reading\norder: 1\n---\n\n### Background \nModular programming originated back in the 1960s when developers began breaking up larger software programs into smaller parts. Although this concept has been around for six decades, it is still extremely relevant and useful for today’s software developers, and one of the key programming principles. At the eScience center, we really encourage modularity in all our software development projects as it helps the center to increase re-usability across projects and cross scientific disciplines, which is a key to the eScience domain as a whole. \n"},{"_path":"/modules/modularity/further_reading","_dir":"modularity","_draft":false,"_partial":false,"_locale":"","title":"Further Reading","description":"","type":"reading","order":5,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"further-reading"},"children":[{"type":"text","value":"Further Reading"}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Modularity in Software: A Retrospective by Dean Wampler: "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=yMc6s7qT988","rel":["nofollow"]},"children":[{"type":"text","value":"conferenceTalk"}]}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"further-reading","depth":3,"text":"Further Reading"}]}},"_type":"markdown","_id":"local_fs:modules:Modularity:further_reading.md","_source":"local_fs","_file":"modules/Modularity/further_reading.md","_extension":"md","plainText":"---\ntitle: Further Reading \ntype: reading\norder: 5\n---\n\n### Further Reading\n\n - Modularity in Software: A Retrospective by Dean Wampler: [conferenceTalk](https://www.youtube.com/watch?v=yMc6s7qT988)\n"},{"_path":"/modules/modularity","_dir":"modules","_draft":false,"_partial":false,"_locale":"","title":"Software Modularity","description":"Photo by TODO on Unsplash","category":"Module2","order":1,"author":"eScience Center","abstract":null,"thumbnail":"Modularity-in-Software-Engineering.png","visibility":"visible","body":{"type":"root","children":[{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Photo by "},{"type":"element","tag":"a","props":{"href":""},"children":[{"type":"text","value":"TODO"}]},{"type":"text","value":" on "},{"type":"element","tag":"a","props":{"href":"https://csharp-station.com/Tutorial/CSharp/Lesson19"},"children":[{"type":"text","value":"Unsplash"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:Modularity:index.md","_source":"local_fs","_file":"modules/Modularity/index.md","_extension":"md","plainText":"---\ntitle: Software Modularity\ncategory: Module2\norder: 1 \nauthor: eScience Center\nabstract: \nthumbnail: \"Modularity-in-Software-Engineering.png\"\nvisibility: visible\n---\n\n\nPhoto by TODO on Unsplash\n \n \n"},{"_path":"/modules/modularity/info","_dir":"modularity","_draft":false,"_partial":false,"_locale":"","title":"Learning objectives","description":"","type":"info","order":0,"body":{"type":"root","children":[{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"after completing Unit 1 you will have learned\n"},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"the basics of reproducible research"}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"the basics of project design"}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"some important eScience best practices."}]}]}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Note"}]},{"type":"text","value":": Unit 1 does not involve practical hands-on; after completing Unit 1 you will have learned some of basics of modular programming and you should be able to apply the principle you have learned in this unit in your research projects."}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:Modularity:info.md","_source":"local_fs","_file":"modules/Modularity/info.md","_extension":"md","plainText":"---\ntitle: Learning objectives\ntype: info\norder: 0\n---\n- after completing Unit 1 you will have learned \n - the basics of reproducible research \n - the basics of project design \n - some important eScience best practices. \n\n **Note**: Unit 1 does not involve practical hands-on; after completing Unit 1 you will have learned some of basics of modular programming and you should be able to apply the principle you have learned in this unit in your research projects. \n\n"},{"_path":"/modules/modularity/instructions","_dir":"modularity","_draft":false,"_partial":false,"_locale":"","title":"Unit 1 Instructions","description":"","type":"reading","order":2,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"instructions"},"children":[{"type":"text","value":"Instructions"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"For Unit 1, we selected a couple of references which will help you to develop a good understanding of the principles of modular design. "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"1"}]},{"type":"text","value":" is a talk published by Oracle learning and gives a good overview of software modularity and architectures. "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"2"}]},{"type":"text","value":" is the first lecture of course at University of Verginia, it explains many concepts on modular design what are the qualities of good modules, metrics of module quality-cohesion and coupling. "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"3"}]},{"type":"text","value":" is a retrospective talk on the modularity theme, it includes a brief history of software modularity since its introduction, why it is useful and the good and the bad of modularity over its evolution. "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"3"}]},{"type":"text","value":" is proposed as a further reading (extra-material) for RSE who want to reflect deeper on the software modularity. Similarly, reference "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"4"}]},{"type":"text","value":" is extra-material focusing on Cohesion and coupling in python."}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"To complete Unit 1, you are expected to:"}]}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Read/watch the suggested "},{"type":"element","tag":"a","props":{"href":"http://localhost:3000/internal-training/modules/Modularity/teaching_material","rel":["nofollow"]},"children":[{"type":"text","value":"teaching material"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Please send the list of questions to your coach one day before the weekly meetings.."}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Time expected to complete this unit: "},{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"4 hours"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"instructions","depth":3,"text":"Instructions"}]}},"_type":"markdown","_id":"local_fs:modules:Modularity:instructions.md","_source":"local_fs","_file":"modules/Modularity/instructions.md","_extension":"md","plainText":"---\ntitle: Unit 1 Instructions \ntype: reading\norder: 2\n---\n\n### Instructions \n\nFor Unit 1, we selected a couple of references which will help you to develop a good understanding of the principles of modular design. [1] is a talk published by Oracle learning and gives a good overview of software modularity and architectures. [2] is the first lecture of course at University of Verginia, it explains many concepts on modular design what are the qualities of good modules, metrics of module quality-cohesion and coupling. [3] is a retrospective talk on the modularity theme, it includes a brief history of software modularity since its introduction, why it is useful and the good and the bad of modularity over its evolution. [3] is proposed as a further reading (extra-material) for RSE who want to reflect deeper on the software modularity. Similarly, reference [4] is extra-material focusing on Cohesion and coupling in python. \n\n**To complete Unit 1, you are expected to:** \n\n - Read/watch the suggested [teaching material](http://localhost:3000/internal-training/modules/Modularity/teaching_material) \n - Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach. \n - Please send the list of questions to your coach one day before the weekly meetings.. \n\nTime expected to complete this unit: **4 hours**\n"},{"_path":"/modules/modularity/slides-modularity","_dir":"modularity","_draft":false,"_partial":false,"_locale":"","title":"Software Modularity","description":"===","type":"slides","order":3,"body":{"type":"root","children":[{"type":"element","tag":"h1","props":{"id":"software-modularity"},"children":[{"type":"text","value":"Software Modularity"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"h2","props":{"id":"software-modularity"},"children":[{"type":"text","value":"Software Modularity "},{"type":"element","tag":"todo","props":{},"children":[]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"http://www.esciencecenter.nl","rel":["nofollow"]},"children":[{"type":"text","value":"www.esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"mailto:info@esciencecenter.nl"},"children":[{"type":"text","value":"info@esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"020 - 460 47 70"}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"software-modularity","depth":2,"text":"Software Modularity "}]}},"_type":"markdown","_id":"local_fs:modules:Modularity:slides-modularity.md","_source":"local_fs","_file":"modules/Modularity/slides-modularity.md","_extension":"md","plainText":"---\ntitle: Software Modularity \ntype: slides\norder: 3\n---\n\n\n\n# Software Modularity\n\n===\n\n\n\n## Software Modularity \n \n\n===\n\n\n\nwww.esciencecenter.nl\n\ninfo@esciencecenter.nl\n \n020 - 460 47 70 \n"},{"_path":"/modules/modularity/teaching_material","_dir":"modularity","_draft":false,"_partial":false,"_locale":"","title":"Teaching Material","description":"","type":"exercise","order":3,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"teaching-material"},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Teaching Material"}]}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Software Modularity: Paradoxes, Principles, and Architectures "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=D37sb08SodU","rel":["nofollow"]},"children":[{"type":"text","value":"conferenceTalk"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Modularity lecture university of Virginia "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=Q76mO3eI4qE","rel":["nofollow"]},"children":[{"type":"text","value":"online Lecture"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Cohesion and coupling: write BETTER PYTHON CODE ["},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=eiDyK_ofPPM","rel":["nofollow"]},"children":[{"type":"text","value":"Part 1"}]},{"type":"text","value":", "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=Kv5jhbSkqLE","rel":["nofollow"]},"children":[{"type":"text","value":"Part 2"}]},{"type":"text","value":"]"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"teaching-material","depth":3,"text":"Teaching Material"}]}},"_type":"markdown","_id":"local_fs:modules:Modularity:teaching_material.md","_source":"local_fs","_file":"modules/Modularity/teaching_material.md","_extension":"md","plainText":"---\ntitle: Teaching Material \ntype: exercise\norder: 3\n---\n\n### **Teaching Material**\n\n- Software Modularity: Paradoxes, Principles, and Architectures [conferenceTalk](https://www.youtube.com/watch?v=D37sb08SodU)\n- Modularity lecture university of Virginia [online Lecture](https://www.youtube.com/watch?v=Q76mO3eI4qE)\n- Cohesion and coupling: write BETTER PYTHON CODE [[Part 1](https://www.youtube.com/watch?v=eiDyK_ofPPM), [Part 2](https://www.youtube.com/watch?v=Kv5jhbSkqLE)] \n"},{"_path":"/modules/notebooks-and-literate-programming/context","_dir":"notebooks-and-literate-programming","_draft":false,"_partial":false,"_locale":"","title":"Background unit 4","description":"","type":"reading","order":1,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"background"},"children":[{"type":"text","value":"Background"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"It seems obvious, but code is not only written for machines: it is written for people, too. Overlooking this fact can cause problems. Literate programming is an approach to programming in which the code is explained using natural language alongside the source code. This is distinct from related practices such as documentation or code comments; there, the code is primary, with commentary and explanation being secondary. In literate programming, however, explanation has equal billing with the code itself. A “notebook” environment is one genre of literate programming tools that is supported by many data-centric literate programming tools such as Jupyter Notebooks, Mathematica, Databricks, Apache Zeppelin, and Sage Notebooks."}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"background","depth":3,"text":"Background"}]}},"_type":"markdown","_id":"local_fs:modules:Notebooks-and-literate-programming:context.md","_source":"local_fs","_file":"modules/Notebooks-and-literate-programming/context.md","_extension":"md","plainText":"---\ntitle: Background unit 4 \ntype: reading\norder: 1\n---\n\n### Background \nIt seems obvious, but code is not only written for machines: it is written for people, too. Overlooking this fact can cause problems. Literate programming is an approach to programming in which the code is explained using natural language alongside the source code. This is distinct from related practices such as documentation or code comments; there, the code is primary, with commentary and explanation being secondary. In literate programming, however, explanation has equal billing with the code itself. A “notebook” environment is one genre of literate programming tools that is supported by many data-centric literate programming tools such as Jupyter Notebooks, Mathematica, Databricks, Apache Zeppelin, and Sage Notebooks.\n"},{"_path":"/modules/notebooks-and-literate-programming/further_reading","_dir":"notebooks-and-literate-programming","_draft":false,"_partial":false,"_locale":"","title":"Further Reading","description":"","type":"reading","order":5,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"further-reading"},"children":[{"type":"text","value":"Further Reading"}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Modularity in Software: A Retrospective by Dean Wampler: "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"conferenceTalk"}]},{"type":"text","value":" ("},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=yMc6s7qT988","rel":["nofollow"]},"children":[{"type":"text","value":"https://www.youtube.com/watch?v=yMc6s7qT988"}]},{"type":"text","value":")"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"further-reading","depth":3,"text":"Further Reading"}]}},"_type":"markdown","_id":"local_fs:modules:Notebooks-and-literate-programming:further_reading.md","_source":"local_fs","_file":"modules/Notebooks-and-literate-programming/further_reading.md","_extension":"md","plainText":"---\ntitle: Further Reading \ntype: reading\norder: 5\n---\n\n### Further Reading\n\n - Modularity in Software: A Retrospective by Dean Wampler: [conferenceTalk] (https://www.youtube.com/watch?v=yMc6s7qT988)\n"},{"_path":"/modules/notebooks-and-literate-programming","_dir":"modules","_draft":false,"_partial":false,"_locale":"","title":"Notebooks & literate programming","description":"Photo by TODO on Unsplash","category":"Module2","order":4,"author":"eScience Center","abstract":null,"thumbnail":"literate-programming.jpeg","visibility":"visible","body":{"type":"root","children":[{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Photo by "},{"type":"element","tag":"a","props":{"href":""},"children":[{"type":"text","value":"TODO"}]},{"type":"text","value":" on "},{"type":"element","tag":"a","props":{"href":"https://csharp-station.com/Tutorial/CSharp/Lesson19"},"children":[{"type":"text","value":"Unsplash"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:Notebooks-and-literate-programming:index.md","_source":"local_fs","_file":"modules/Notebooks-and-literate-programming/index.md","_extension":"md","plainText":"---\ntitle: Notebooks & literate programming\ncategory: Module2\norder: 4\nauthor: eScience Center\nabstract: \nthumbnail: \"literate-programming.jpeg\"\nvisibility: visible\n---\n\n\nPhoto by TODO on Unsplash\n \n \n"},{"_path":"/modules/notebooks-and-literate-programming/info","_dir":"notebooks-and-literate-programming","_draft":false,"_partial":false,"_locale":"","title":"Learning objectives","description":"","type":"info","order":0,"body":{"type":"root","children":[{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Understand the Concept of Literate Programming: Learners will be able to explain the principles of literate programming, including how it differs from traditional code documentation, and articulate its importance in making code more understandable for humans."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Appreciate the Role of Notebooks in Data-Centric Workflows: Learners will be able to describe the advantages of using notebook environments like Jupyter Notebooks, Mathematica, and Apache Zeppelin for combining code with explanatory narratives in data science workflows."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Adopt a Literate Programming Mindset: Learners will be able to integrate literate programming techniques into their coding practice, focusing on balancing natural language explanations with source code, inspired by Donald Knuth’s and other talks on the subject."}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:Notebooks-and-literate-programming:info.md","_source":"local_fs","_file":"modules/Notebooks-and-literate-programming/info.md","_extension":"md","plainText":"---\ntitle: Learning objectives\ntype: info\norder: 0\n---\n\n- Understand the Concept of Literate Programming: Learners will be able to explain the principles of literate programming, including how it differs from traditional code documentation, and articulate its importance in making code more understandable for humans.\n\n- Appreciate the Role of Notebooks in Data-Centric Workflows: Learners will be able to describe the advantages of using notebook environments like Jupyter Notebooks, Mathematica, and Apache Zeppelin for combining code with explanatory narratives in data science workflows.\n\n- Adopt a Literate Programming Mindset: Learners will be able to integrate literate programming techniques into their coding practice, focusing on balancing natural language explanations with source code, inspired by Donald Knuth’s and other talks on the subject.\n"},{"_path":"/modules/notebooks-and-literate-programming/instructions","_dir":"notebooks-and-literate-programming","_draft":false,"_partial":false,"_locale":"","title":"Unit 4 Instructions","description":"","type":"reading","order":2,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"instruction"},"children":[{"type":"text","value":"Instruction"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"For Unit 4, we selected a couple of references which will help to motivate you to see the importance of literate programming and Notebooks. "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"1"}]},{"type":"text","value":" is a very short video of Donald Knuth about the importance of Literature programming. "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"2"}]},{"type":"text","value":" is a longer talk which stresses further the importance of literate programming and promotes a mind shift from documenting code to writing a book. The last reference is focused on the usage of notebooks in Data Science."}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"To complete Unit 4, you are expected to:"}]}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Read/watch the suggested "},{"type":"element","tag":"a","props":{"href":"http://localhost:3000/internal-training/readability-and-code-formatting/teaching_material","rel":["nofollow"]},"children":[{"type":"text","value":"teaching material"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Please send the list of questions to your coach one day before the weekly meetings.."}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Time expected to complete this unit: "},{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"4 hours"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"instruction","depth":3,"text":"Instruction"}]}},"_type":"markdown","_id":"local_fs:modules:Notebooks-and-literate-programming:instructions.md","_source":"local_fs","_file":"modules/Notebooks-and-literate-programming/instructions.md","_extension":"md","plainText":"---\ntitle: Unit 4 Instructions \ntype: reading\norder: 2\n---\n\n### Instruction\n\nFor Unit 4, we selected a couple of references which will help to motivate you to see the importance of literate programming and Notebooks. [1] is a very short video of Donald Knuth about the importance of Literature programming. [2] is a longer talk which stresses further the importance of literate programming and promotes a mind shift from documenting code to writing a book. The last reference is focused on the usage of notebooks in Data Science. \n \n**To complete Unit 4, you are expected to:** \n\n - Read/watch the suggested [teaching material](http://localhost:3000/internal-training/readability-and-code-formatting/teaching_material) \n - Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach. \n - Please send the list of questions to your coach one day before the weekly meetings.. \n\nTime expected to complete this unit: **4 hours**\n"},{"_path":"/modules/notebooks-and-literate-programming/slides-notebooks-and-literate-programming","_dir":"notebooks-and-literate-programming","_draft":false,"_partial":false,"_locale":"","title":"notebooks-and-literate-programming","description":"===","type":"slides","order":3,"body":{"type":"root","children":[{"type":"element","tag":"h1","props":{"id":"notebooks-and-literate-programming"},"children":[{"type":"text","value":"notebooks-and-literate-programming"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"h2","props":{"id":"notebooks-and-literate-programming"},"children":[{"type":"text","value":"notebooks-and-literate-programming "},{"type":"element","tag":"todo","props":{},"children":[]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"http://www.esciencecenter.nl","rel":["nofollow"]},"children":[{"type":"text","value":"www.esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"mailto:info@esciencecenter.nl"},"children":[{"type":"text","value":"info@esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"020 - 460 47 70"}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"notebooks-and-literate-programming","depth":2,"text":"notebooks-and-literate-programming "}]}},"_type":"markdown","_id":"local_fs:modules:Notebooks-and-literate-programming:slides-notebooks-and-literate-programming.md","_source":"local_fs","_file":"modules/Notebooks-and-literate-programming/slides-notebooks-and-literate-programming.md","_extension":"md","plainText":"---\ntitle: notebooks-and-literate-programming \ntype: slides\norder: 3\n---\n\n\n\n# notebooks-and-literate-programming\n\n===\n\n\n\n## notebooks-and-literate-programming \n \n\n===\n\n\n\nwww.esciencecenter.nl\n\ninfo@esciencecenter.nl\n \n020 - 460 47 70 \n"},{"_path":"/modules/notebooks-and-literate-programming/teaching_material","_dir":"notebooks-and-literate-programming","_draft":false,"_partial":false,"_locale":"","title":"Teaching Material","description":"","type":"exercise","order":3,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"teaching-material"},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Teaching Material"}]}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Donald Knuth - Literate programming "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=bTkXg2LZIMQ","rel":["nofollow"]},"children":[{"type":"text","value":"origine"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Literate Programming in the Large "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=Av0PQDVTP4A","rel":["nofollow"]},"children":[{"type":"text","value":"Keynote"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"iStory in the Notebook: Data Science using Literate Programming …"},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=bmLUcnu1Qi8","rel":["nofollow"]},"children":[{"type":"text","value":"conferenceTalk"}]},{"type":"text","value":", "},{"type":"element","tag":"a","props":{"href":"https://dl.acm.org/doi/pdf/10.1145/3173574.3173748","rel":["nofollow"]},"children":[{"type":"text","value":"paper"}]}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"teaching-material","depth":3,"text":"Teaching Material"}]}},"_type":"markdown","_id":"local_fs:modules:Notebooks-and-literate-programming:teaching_material.md","_source":"local_fs","_file":"modules/Notebooks-and-literate-programming/teaching_material.md","_extension":"md","plainText":"---\ntitle: Teaching Material \ntype: exercise\norder: 3\n---\n\n### **Teaching Material**\n\n- Donald Knuth - Literate programming [origine](https://www.youtube.com/watch?v=bTkXg2LZIMQ)\n- Literate Programming in the Large [Keynote](https://www.youtube.com/watch?v=Av0PQDVTP4A)\n- iStory in the Notebook: Data Science using Literate Programming …[conferenceTalk](https://www.youtube.com/watch?v=bmLUcnu1Qi8), [paper](https://dl.acm.org/doi/pdf/10.1145/3173574.3173748)\n"},{"_path":"/modules/open-science-and-reproducible-research/context","_dir":"open-science-and-reproducible-research","_draft":false,"_partial":false,"_locale":"","title":"Background unit 3","description":"","type":"reading","order":1,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"background"},"children":[{"type":"text","value":"Background"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Reproducibility of research requires that research data and code be made available so that others can reach the results published in scientific outputs. Improving reproducibility leads to increased rigour and quality of scientific outputs, and thus to greater trust in science. There has been a growing need and willingness to expose research workflows lifecycle from initiation of a project and data collection right through to the interpretation and reporting of results. These developments have come with their own sets of challenges, including designing integrated research workflows that can be adopted by collaborators while maintaining high standards of integrity."}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"background","depth":3,"text":"Background"}]}},"_type":"markdown","_id":"local_fs:modules:Open-science-and-reproducible-research:context.md","_source":"local_fs","_file":"modules/Open-science-and-reproducible-research/context.md","_extension":"md","plainText":"---\ntitle: Background unit 3 \ntype: reading\norder: 1 \n---\n\n### Background \nReproducibility of research requires that research data and code be made available so that others can reach the results published in scientific outputs. Improving reproducibility leads to increased rigour and quality of scientific outputs, and thus to greater trust in science. There has been a growing need and willingness to expose research workflows lifecycle from initiation of a project and data collection right through to the interpretation and reporting of results. These developments have come with their own sets of challenges, including designing integrated research workflows that can be adopted by collaborators while maintaining high standards of integrity.\n"},{"_path":"/modules/open-science-and-reproducible-research/further_reading","_dir":"open-science-and-reproducible-research","_draft":false,"_partial":false,"_locale":"","title":"Further Reading","description":"","type":"reading","order":6,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"further-reading"},"children":[{"type":"text","value":"Further Reading"}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"further-reading","depth":3,"text":"Further Reading"}]}},"_type":"markdown","_id":"local_fs:modules:Open-science-and-reproducible-research:further_reading.md","_source":"local_fs","_file":"modules/Open-science-and-reproducible-research/further_reading.md","_extension":"md","plainText":"---\ntitle: Further Reading \ntype: reading\norder: 6\n---\n\n### Further Reading\n"},{"_path":"/modules/open-science-and-reproducible-research","_dir":"modules","_draft":false,"_partial":false,"_locale":"","title":"Open Science and Reproducible Research","description":"Photo by TODO on Unsplash","category":"Module4","order":3,"author":"eScience Center","abstract":null,"thumbnail":"UNESCO-Open_science-pillars-en.png","visibility":"visible","body":{"type":"root","children":[{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Photo by "},{"type":"element","tag":"a","props":{"href":""},"children":[{"type":"text","value":"TODO"}]},{"type":"text","value":" on "},{"type":"element","tag":"a","props":{"href":"https://csharp-station.com/Tutorial/CSharp/Lesson19"},"children":[{"type":"text","value":"Unsplash"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:Open-science-and-reproducible-research:index.md","_source":"local_fs","_file":"modules/Open-science-and-reproducible-research/index.md","_extension":"md","plainText":"---\ntitle: Open Science and Reproducible Research \ncategory: Module4\norder: 3 \nauthor: eScience Center\nabstract: \nthumbnail: \"UNESCO-Open_science-pillars-en.png\"\nvisibility: visible\n---\n\n\nPhoto by TODO on Unsplash\n \n \n"},{"_path":"/modules/open-science-and-reproducible-research/info","_dir":"open-science-and-reproducible-research","_draft":false,"_partial":false,"_locale":"","title":"Learning objectives","description":"","type":"info","order":0,"body":{"type":"root","children":[{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Understand the Importance of Reproducibility in Research: Learners will be able to explain the role of reproducibility in enhancing the rigor, transparency, and trustworthiness of scientific research, and the importance of making research data and code accessible for others to validate and replicate results."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Explore Open Science Practices for Research Workflows: Learners will be able to describe key principles of Open Science and how they can be applied to design and share integrated research workflows, ensuring that research practices are transparent, accessible, and reproducible."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Contribute to Open-Source Projects and Research Communities"},{"type":"element","tag":"div","props":{},"children":[]},{"type":"text","value":" will be able to engage with open-source research communities, identifying opportunities for contribution and applying best practices to contribute meaningfully while maintaining high standards of integrity and collaboration."},{"type":"element","tag":"br","props":{},"children":[]}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:Open-science-and-reproducible-research:info.md","_source":"local_fs","_file":"modules/Open-science-and-reproducible-research/info.md","_extension":"md","plainText":"---\ntitle: Learning objectives\ntype: info\norder: 0\n---\n\n- Understand the Importance of Reproducibility in Research: Learners will be able to explain the role of reproducibility in enhancing the rigor, transparency, and trustworthiness of scientific research, and the importance of making research data and code accessible for others to validate and replicate results.\n\n- Explore Open Science Practices for Research Workflows: Learners will be able to describe key principles of Open Science and how they can be applied to design and share integrated research workflows, ensuring that research practices are transparent, accessible, and reproducible.\n\n- Contribute to Open-Source Projects and Research Communities:Learners will be able to engage with open-source research communities, identifying opportunities for contribution and applying best practices to contribute meaningfully while maintaining high standards of integrity and collaboration.\n"},{"_path":"/modules/open-science-and-reproducible-research/instructions","_dir":"open-science-and-reproducible-research","_draft":false,"_partial":false,"_locale":"","title":"Unit 3 Instructions","description":"","type":"reading","order":2,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"instructions"},"children":[{"type":"text","value":"Instructions"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"For Unit 3, we selected three references which cover two important topics at the center: Open Science and reproducible research. "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"3"}]},{"type":"text","value":" is talk where the speaker shares her experience with contributing to Cucumber, including making an early mistake (merging something that was not ready yet) and fixing it with the support of core maintainers, and still feeling welcome. You will learn how to find your project and contributions to start with, how to connect with the community to make sure your contributions are useful, and the many diverse types of contributions you can make."}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"To complete Unit 3, you are expected to:"}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Read/watch the suggested teaching material."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Please send the list of questions to your coach one day before."}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Important: the proposed material includes hands-on assignments. Do try them and if you encounter issues you cannot solve, do share them with your coach."}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Time expected to complete this unit: "},{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"4 hours"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"instructions","depth":3,"text":"Instructions"}]}},"_type":"markdown","_id":"local_fs:modules:Open-science-and-reproducible-research:instructions.md","_source":"local_fs","_file":"modules/Open-science-and-reproducible-research/instructions.md","_extension":"md","plainText":"---\ntitle: Unit 3 Instructions \ntype: reading\norder: 2\n---\n\n### Instructions \nFor Unit 3, we selected three references which cover two important topics at the center: Open Science and reproducible research. [3] is talk where the speaker shares her experience with contributing to Cucumber, including making an early mistake (merging something that was not ready yet) and fixing it with the support of core maintainers, and still feeling welcome. You will learn how to find your project and contributions to start with, how to connect with the community to make sure your contributions are useful, and the many diverse types of contributions you can make. \n\n\nTo complete Unit 3, you are expected to: \n\n - Read/watch the suggested teaching material. \n\n - Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach. \n\n - Please send the list of questions to your coach one day before. \n\nImportant: the proposed material includes hands-on assignments. Do try them and if you encounter issues you cannot solve, do share them with your coach. \n\nTime expected to complete this unit: **4 hours**\n"},{"_path":"/modules/open-science-and-reproducible-research/slides-open-science-and-reproducible-research","_dir":"open-science-and-reproducible-research","_draft":false,"_partial":false,"_locale":"","title":"Open Science and Reproducible Research","description":"===","type":"slides","order":3,"body":{"type":"root","children":[{"type":"element","tag":"h1","props":{"id":"open-science-and-reproducible-research"},"children":[{"type":"text","value":"Open Science and Reproducible Research"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"h2","props":{"id":"open-science-and-reproducible-research"},"children":[{"type":"text","value":"Open Science and Reproducible Research "},{"type":"element","tag":"todo","props":{},"children":[]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"http://www.esciencecenter.nl","rel":["nofollow"]},"children":[{"type":"text","value":"www.esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"mailto:info@esciencecenter.nl"},"children":[{"type":"text","value":"info@esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"020 - 460 47 70"}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"open-science-and-reproducible-research","depth":2,"text":"Open Science and Reproducible Research "}]}},"_type":"markdown","_id":"local_fs:modules:Open-science-and-reproducible-research:slides-open-science-and-reproducible-research.md","_source":"local_fs","_file":"modules/Open-science-and-reproducible-research/slides-open-science-and-reproducible-research.md","_extension":"md","plainText":"---\ntitle: Open Science and Reproducible Research \ntype: slides\norder: 3\n---\n\n\n\n# Open Science and Reproducible Research\n\n===\n\n\n\n## Open Science and Reproducible Research \n \n\n===\n\n\n\nwww.esciencecenter.nl\n\ninfo@esciencecenter.nl\n \n020 - 460 47 70 \n"},{"_path":"/modules/open-science-and-reproducible-research/teaching_material","_dir":"open-science-and-reproducible-research","_draft":false,"_partial":false,"_locale":"","title":"Teaching Material","description":"","type":"exercise","order":5,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"teaching-material"},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Teaching Material"}]}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Open Science and Reproducible Research "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=KE9jsXxI6No","rel":["nofollow"]},"children":[{"type":"text","value":"OnlineTalk"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"An Introduction to Reproducible Research Practices "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=VjDM-XsoHUQ","rel":["nofollow"]},"children":[{"type":"text","value":"WorkshopTalk"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"WHAT IS OPEN SCIENCE? | An introduction series to open science "},{"type":"element","tag":"a","props":{"href":"ihttps://www.youtube.com/watch?v=mVCDkhxxUgg"},"children":[{"type":"text","value":"Webinar"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Reproducibility and Open Science "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=VjDM-XsoHUQ","rel":["nofollow"]},"children":[{"type":"text","value":"OnlineTalk"}]}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"teaching-material","depth":3,"text":"Teaching Material"}]}},"_type":"markdown","_id":"local_fs:modules:Open-science-and-reproducible-research:teaching_material.md","_source":"local_fs","_file":"modules/Open-science-and-reproducible-research/teaching_material.md","_extension":"md","plainText":"---\ntitle: Teaching Material \ntype: exercise\norder: 5\n---\n\n### **Teaching Material**\n\n- Open Science and Reproducible Research [OnlineTalk](https://www.youtube.com/watch?v=KE9jsXxI6No)\n- An Introduction to Reproducible Research Practices [WorkshopTalk](https://www.youtube.com/watch?v=VjDM-XsoHUQ)\n- WHAT IS OPEN SCIENCE? | An introduction series to open science [Webinar](ihttps://www.youtube.com/watch?v=mVCDkhxxUgg) \n- Reproducibility and Open Science [OnlineTalk](https://www.youtube.com/watch?v=VjDM-XsoHUQ)\n"},{"_path":"/modules/oss-libraries/context","_dir":"oss-libraries","_draft":false,"_partial":false,"_locale":"","title":"Background unit 1","description":"","type":"reading","order":1,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"background"},"children":[{"type":"text","value":"Background"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"It is common for developers to use open-source libraries and frameworks: open-source software is freely available, often robust, and flexible. Using OSS libraries makes the developer’s work easier avoiding the developers starting each time from scratch which is inefficient (long time to reach a stable software release) and lead to duplication of effort. One of the first tasks of RSE at the eScience center is to identify potential OSS libraries and use them appropriately. In Unit 1, we cover the basics of OSS libraries which hopefully will help you to make well-informed decisions about OSS libraries in your projects."}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"background","depth":3,"text":"Background"}]}},"_type":"markdown","_id":"local_fs:modules:Oss-libraries:context.md","_source":"local_fs","_file":"modules/Oss-libraries/context.md","_extension":"md","plainText":"---\ntitle: Background unit 1 \ntype: reading\norder: 1 \n---\n\n### Background \nIt is common for developers to use open-source libraries and frameworks: open-source software is freely available, often robust, and flexible. Using OSS libraries makes the developer’s work easier avoiding the developers starting each time from scratch which is inefficient (long time to reach a stable software release) and lead to duplication of effort. One of the first tasks of RSE at the eScience center is to identify potential OSS libraries and use them appropriately. In Unit 1, we cover the basics of OSS libraries which hopefully will help you to make well-informed decisions about OSS libraries in your projects.\n"},{"_path":"/modules/oss-libraries/further_reading","_dir":"oss-libraries","_draft":false,"_partial":false,"_locale":"","title":"Further Reading","description":"","type":"reading","order":6,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"further-reading"},"children":[{"type":"text","value":"Further Reading"}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"further-reading","depth":3,"text":"Further Reading"}]}},"_type":"markdown","_id":"local_fs:modules:Oss-libraries:further_reading.md","_source":"local_fs","_file":"modules/Oss-libraries/further_reading.md","_extension":"md","plainText":"---\ntitle: Further Reading \ntype: reading\norder: 6\n---\n\n### Further Reading\n\n"},{"_path":"/modules/oss-libraries","_dir":"modules","_draft":false,"_partial":false,"_locale":"","title":"OSS libraries","description":"Photo by TODO on Unsplash","category":"Module4","order":1,"author":"eScience Center","abstract":null,"thumbnail":"open-source-software-1.jpg","visibility":"visible","body":{"type":"root","children":[{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Photo by "},{"type":"element","tag":"a","props":{"href":""},"children":[{"type":"text","value":"TODO"}]},{"type":"text","value":" on "},{"type":"element","tag":"a","props":{"href":"https://csharp-station.com/Tutorial/CSharp/Lesson19"},"children":[{"type":"text","value":"Unsplash"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:Oss-libraries:index.md","_source":"local_fs","_file":"modules/Oss-libraries/index.md","_extension":"md","plainText":"---\ntitle: OSS libraries \ncategory: Module4\norder: 1 \nauthor: eScience Center\nabstract: \nthumbnail: \"open-source-software-1.jpg\"\nvisibility: visible\n---\n\n\nPhoto by TODO on Unsplash\n \n \n"},{"_path":"/modules/oss-libraries/info","_dir":"oss-libraries","_draft":false,"_partial":false,"_locale":"","title":"Learning objectives","description":"","type":"info","order":0,"body":{"type":"root","children":[{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Understand the Benefits and Risks of Using Open-Source Software (OSS): Learners will be able to explain the advantages of using OSS libraries, including saving development time, reducing duplication of effort, and promoting collaboration, while also identifying and mitigating potential risks associated with their use."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Evaluate OSS Libraries for Project Integration: Learners will be able to assess OSS libraries based on criteria such as development philosophy, community support, licensing, and compatibility, to make informed decisions on which libraries to incorporate into their projects."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Manage OSS Library Usage and Contributions"},{"type":"element","tag":"div","props":{},"children":[]},{"type":"text","value":" will be able to manage the integration and contribution to OSS projects, understanding the organizational risks, governance, and best practices for using and contributing to OSS without compromising security, stability, or business objectives."},{"type":"element","tag":"br","props":{},"children":[]}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:Oss-libraries:info.md","_source":"local_fs","_file":"modules/Oss-libraries/info.md","_extension":"md","plainText":"---\ntitle: Learning objectives\ntype: info\norder: 0\n---\n\n\n- Understand the Benefits and Risks of Using Open-Source Software (OSS): Learners will be able to explain the advantages of using OSS libraries, including saving development time, reducing duplication of effort, and promoting collaboration, while also identifying and mitigating potential risks associated with their use.\n\n- Evaluate OSS Libraries for Project Integration: Learners will be able to assess OSS libraries based on criteria such as development philosophy, community support, licensing, and compatibility, to make informed decisions on which libraries to incorporate into their projects.\n\n- Manage OSS Library Usage and Contributions:Learners will be able to manage the integration and contribution to OSS projects, understanding the organizational risks, governance, and best practices for using and contributing to OSS without compromising security, stability, or business objectives.\n"},{"_path":"/modules/oss-libraries/instructions","_dir":"oss-libraries","_draft":false,"_partial":false,"_locale":"","title":"Unit 1 Instructions","description":"","type":"reading","order":2,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"instructions"},"children":[{"type":"text","value":"Instructions"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"For Unit 1, we selected three references which give you an overview of the points you should consider when using an Open-Source Software library in your project. "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"1"}]},{"type":"text","value":" Is a web page part of the Opensource.com web which introduces opensource through a set of questions and points you to more resources on the topic. "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"2"}]},{"type":"text","value":" is a lecture given at the University of Nottingham and introduce a few concepts related to Open-Source Software like different philosophy of software development, third party libraries, build systems, Free software foundation, and a few industries use case. "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"3"}]},{"type":"text","value":" is article covering the risks of using OSS by corporates, the article explains how to control risks related to the use and contribution to open source without reducing its business potential."}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"To complete Unit 6, you are expected to:"}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Read/watch the suggested teaching material."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Please send the list of questions to your coach one day before."}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Important: the proposed material includes hands-on assignments. Do try them and if you encounter issues you cannot solve, do share them with your coach."}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Time expected to complete this unit: "},{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"4 hours"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"instructions","depth":3,"text":"Instructions"}]}},"_type":"markdown","_id":"local_fs:modules:Oss-libraries:instructions.md","_source":"local_fs","_file":"modules/Oss-libraries/instructions.md","_extension":"md","plainText":"---\ntitle: Unit 1 Instructions \ntype: reading\norder: 2\n---\n\n### Instructions \nFor Unit 1, we selected three references which give you an overview of the points you should consider when using an Open-Source Software library in your project. [1] Is a web page part of the Opensource.com web which introduces opensource through a set of questions and points you to more resources on the topic. [2] is a lecture given at the University of Nottingham and introduce a few concepts related to Open-Source Software like different philosophy of software development, third party libraries, build systems, Free software foundation, and a few industries use case. [3] is article covering the risks of using OSS by corporates, the article explains how to control risks related to the use and contribution to open source without reducing its business potential. \n\nTo complete Unit 6, you are expected to: \n\n - Read/watch the suggested teaching material. \n\n - Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach. \n\n - Please send the list of questions to your coach one day before. \n\nImportant: the proposed material includes hands-on assignments. Do try them and if you encounter issues you cannot solve, do share them with your coach. \n\nTime expected to complete this unit: **4 hours**\n"},{"_path":"/modules/oss-libraries/slides-oos-libraries","_dir":"oss-libraries","_draft":false,"_partial":false,"_locale":"","title":"Using OSS libraries","description":"===","type":"slides","order":3,"body":{"type":"root","children":[{"type":"element","tag":"h1","props":{"id":"using-oss-libraries"},"children":[{"type":"text","value":"Using OSS libraries"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"h2","props":{"id":"using-oss-libraries"},"children":[{"type":"text","value":"Using OSS libraries "},{"type":"element","tag":"todo","props":{},"children":[]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"http://www.esciencecenter.nl","rel":["nofollow"]},"children":[{"type":"text","value":"www.esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"mailto:info@esciencecenter.nl"},"children":[{"type":"text","value":"info@esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"020 - 460 47 70"}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"using-oss-libraries","depth":2,"text":"Using OSS libraries "}]}},"_type":"markdown","_id":"local_fs:modules:Oss-libraries:slides-oos-libraries.md","_source":"local_fs","_file":"modules/Oss-libraries/slides-oos-libraries.md","_extension":"md","plainText":"---\ntitle: Using OSS libraries\ntype: slides\norder: 3\n---\n\n\n\n# Using OSS libraries\n\n===\n\n\n\n## Using OSS libraries \n \n\n===\n\n\n\nwww.esciencecenter.nl\n\ninfo@esciencecenter.nl\n \n020 - 460 47 70 \n"},{"_path":"/modules/oss-libraries/teaching_material","_dir":"oss-libraries","_draft":false,"_partial":false,"_locale":"","title":"Teaching Material","description":"","type":"exercise","order":5,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"teaching-material"},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Teaching Material"}]}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"What is Open Source @opensources.com "},{"type":"element","tag":"a","props":{"href":"https://opensource.com/resources/what-open-source","rel":["nofollow"]},"children":[{"type":"text","value":"WebResource"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Open-Source Software and Software Libraries "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=7NgCXVGHOQY","rel":["nofollow"]},"children":[{"type":"text","value":"OnlineCourse"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"The Risks of Open Source software for Corporate use "},{"type":"element","tag":"a","props":{"href":"https://www.compact.nl/articles/the-risks-of-open-source-software-for-corporate-use/","rel":["nofollow"]},"children":[{"type":"text","value":"OnlineArticle"}]}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"teaching-material","depth":3,"text":"Teaching Material"}]}},"_type":"markdown","_id":"local_fs:modules:Oss-libraries:teaching_material.md","_source":"local_fs","_file":"modules/Oss-libraries/teaching_material.md","_extension":"md","plainText":"---\ntitle: Teaching Material \ntype: exercise\norder: 5\n---\n\n### **Teaching Material**\n\n\n- What is Open Source @opensources.com [WebResource](https://opensource.com/resources/what-open-source)\n- Open-Source Software and Software Libraries [OnlineCourse](https://www.youtube.com/watch?v=7NgCXVGHOQY)\n- The Risks of Open Source software for Corporate use [OnlineArticle](https://www.compact.nl/articles/the-risks-of-open-source-software-for-corporate-use/) \n\n \n"},{"_path":"/modules/performance-optimization-and-parallelization/context","_dir":"performance-optimization-and-parallelization","_draft":false,"_partial":false,"_locale":"","title":"Background unit 5","description":"","type":"reading","order":1,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"background"},"children":[{"type":"text","value":"Background"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"As modern computing resources are increasingly geared towards the parallel execution of multiple programs. Nowadays, computing resources can be classified according to the level at which the hardware supports parallelism, with multi-core and multi-processor computers having multiple processing elements within a single machine, while clusters and clouds use multiple computers to work on the same task. Developing skills to write parallel programs becomes essential to exploit the available computing power."}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"background","depth":3,"text":"Background"}]}},"_type":"markdown","_id":"local_fs:modules:Performance-optimization-and-parallelization:context.md","_source":"local_fs","_file":"modules/Performance-optimization-and-parallelization/context.md","_extension":"md","plainText":"---\ntitle: Background unit 5 \ntype: reading\norder: 1 \n---\n\n### Background \nAs modern computing resources are increasingly geared towards the parallel execution of multiple programs. Nowadays, computing resources can be classified according to the level at which the hardware supports parallelism, with multi-core and multi-processor computers having multiple processing elements within a single machine, while clusters and clouds use multiple computers to work on the same task. Developing skills to write parallel programs becomes essential to exploit the available computing power.\n"},{"_path":"/modules/performance-optimization-and-parallelization/further_reading","_dir":"performance-optimization-and-parallelization","_draft":false,"_partial":false,"_locale":"","title":"Further Reading","description":"","type":"reading","order":6,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"further-reading"},"children":[{"type":"text","value":"Further Reading"}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Parallel programming, EPFL "},{"type":"element","tag":"a","props":{"href":"https://www.coursera.org/learn/scala-parallel-programming#syllabus","rel":["nofollow"]},"children":[{"type":"text","value":"MOOC"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Advanced Python Multithreading in Python: "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=_4Y7-NSiOEs","rel":["nofollow"]},"children":[{"type":"text","value":"IO-Bound vs CPU-Bound"}]},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=d1jfCRc9zCU&list=PLE3Y6O9R81lw1G5LujnP2fwJ-dgnX0m6r&index=34","rel":["nofollow"]},"children":[{"type":"text","value":"Multi-core and Hyperthreading"}]}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"further-reading","depth":3,"text":"Further Reading"}]}},"_type":"markdown","_id":"local_fs:modules:Performance-optimization-and-parallelization:further_reading.md","_source":"local_fs","_file":"modules/Performance-optimization-and-parallelization/further_reading.md","_extension":"md","plainText":"---\ntitle: Further Reading \ntype: reading\norder: 6\n---\n\n### Further Reading\n\n\n- Parallel programming, EPFL [MOOC](https://www.coursera.org/learn/scala-parallel-programming#syllabus)\n\n- Advanced Python Multithreading in Python: [IO-Bound vs CPU-Bound](https://www.youtube.com/watch?v=_4Y7-NSiOEs)[Multi-core and Hyperthreading](https://www.youtube.com/watch?v=d1jfCRc9zCU&list=PLE3Y6O9R81lw1G5LujnP2fwJ-dgnX0m6r&index=34)\n"},{"_path":"/modules/performance-optimization-and-parallelization","_dir":"modules","_draft":false,"_partial":false,"_locale":"","title":"Performance optimization and parallelization","description":"Photo by TODO on Unsplash","category":"Module1","order":5,"author":"eScience Center","abstract":null,"thumbnail":"performance-optimization.jpeg","visibility":"visible","body":{"type":"root","children":[{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Photo by "},{"type":"element","tag":"a","props":{"href":""},"children":[{"type":"text","value":"TODO"}]},{"type":"text","value":" on "},{"type":"element","tag":"a","props":{"href":"https://csharp-station.com/Tutorial/CSharp/Lesson19"},"children":[{"type":"text","value":"Unsplash"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:Performance-optimization-and-parallelization:index.md","_source":"local_fs","_file":"modules/Performance-optimization-and-parallelization/index.md","_extension":"md","plainText":"---\ntitle: Performance optimization and parallelization \ncategory: Module1\norder: 5 \nauthor: eScience Center\nabstract: \nthumbnail: \"performance-optimization.jpeg\"\nvisibility: visible\n---\n\n\nPhoto by TODO on Unsplash\n \n \n"},{"_path":"/modules/performance-optimization-and-parallelization/info","_dir":"performance-optimization-and-parallelization","_draft":false,"_partial":false,"_locale":"","title":"Learning objectives","description":"After completing unit 5 you will have acquired a basic concept of performance optimization and parallelization like speedup, scalability, Amdahl’s and Gustafson’s laws, how to design parallel programs, domain decomposition, synchronization, etc.","type":"info","order":0,"body":{"type":"root","children":[{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"After completing unit 5 you will have acquired a basic concept of performance optimization and parallelization like speedup, scalability, Amdahl’s and Gustafson’s laws, how to design parallel programs, domain decomposition, synchronization, etc."}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Understand Parallel Computing Architectures: Learners will be able to describe the classification of modern computing resources based on hardware-supported parallelism, including multi-core systems, multi-processor machines, clusters, and cloud infrastructures."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Analyze Performance Optimization in Parallel Programming: Learners will be able to identify key performance considerations in parallel programming and explain how to optimize programs to effectively utilize available computing power."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Apply Basic Parallel Programming Concepts"},{"type":"element","tag":"div","props":{},"children":[]},{"type":"text","value":" will be able to write and analyze simple parallel programs using insights from the Livermore Computing Center tutorial and Mats Brorsson's lecture, focusing on performance optimization and resource utilization."},{"type":"element","tag":"br","props":{},"children":[]}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:Performance-optimization-and-parallelization:info.md","_source":"local_fs","_file":"modules/Performance-optimization-and-parallelization/info.md","_extension":"md","plainText":"---\ntitle: Learning objectives\ntype: info\norder: 0\n---\n\nAfter completing unit 5 you will have acquired a basic concept of performance optimization and parallelization like speedup, scalability, Amdahl’s and Gustafson’s laws, how to design parallel programs, domain decomposition, synchronization, etc.\n\n- Understand Parallel Computing Architectures: Learners will be able to describe the classification of modern computing resources based on hardware-supported parallelism, including multi-core systems, multi-processor machines, clusters, and cloud infrastructures.\n\n- Analyze Performance Optimization in Parallel Programming: Learners will be able to identify key performance considerations in parallel programming and explain how to optimize programs to effectively utilize available computing power.\n\n- Apply Basic Parallel Programming Concepts:Learners will be able to write and analyze simple parallel programs using insights from the Livermore Computing Center tutorial and Mats Brorsson's lecture, focusing on performance optimization and resource utilization.\n"},{"_path":"/modules/performance-optimization-and-parallelization/instructions","_dir":"performance-optimization-and-parallelization","_draft":false,"_partial":false,"_locale":"","title":"Unit 5 Instructions","description":"","type":"reading","order":2,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"instructions"},"children":[{"type":"text","value":"Instructions"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"For Unit 5, we selected two references which will help you to acquire the necessary knowledge of performance optimization and parallel programming. The Introduction to Parallel Computing Tutorial given by the Livermore computing Center is an excellent introduction to the topics of this Unit "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"1"}]},{"type":"text","value":". This tutorial can be combined with the 20 minutes introduction to parallel programming: Performance aspects, by Mats Brorsson from University of Luxembourg "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"2"}]},{"type":"text","value":"."}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"To complete Unit 5, you are expected to:"}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Read/watch the suggested teaching material."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Please send the list of questions to your coach one day before."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Practical hands-on for this unit are provided by the material used for eScience Center External Training program "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"4"}]},{"type":"text","value":". You can do the hands-on individually or join a the eScience Center external workshop. Check the eScience Digital-skills for the workshops schedule, contact the eScience Center Training to check whether there is still space for you to join."}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Time expected to complete this unit: "},{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"4 hours"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"instructions","depth":3,"text":"Instructions"}]}},"_type":"markdown","_id":"local_fs:modules:Performance-optimization-and-parallelization:instructions.md","_source":"local_fs","_file":"modules/Performance-optimization-and-parallelization/instructions.md","_extension":"md","plainText":"---\ntitle: Unit 5 Instructions \ntype: reading\norder: 2\n---\n\n### Instructions \n\nFor Unit 5, we selected two references which will help you to acquire the necessary knowledge of performance optimization and parallel programming. The Introduction to Parallel Computing Tutorial given by the Livermore computing Center is an excellent introduction to the topics of this Unit [1]. This tutorial can be combined with the 20 minutes introduction to parallel programming: Performance aspects, by Mats Brorsson from University of Luxembourg [2].\n\nTo complete Unit 5, you are expected to:\n\n - Read/watch the suggested teaching material.\n\n - Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach.\n\n - Please send the list of questions to your coach one day before.\n\n - Practical hands-on for this unit are provided by the material used for eScience Center External Training program [4]. You can do the hands-on individually or join a the eScience Center external workshop. Check the eScience Digital-skills for the workshops schedule, contact the eScience Center Training to check whether there is still space for you to join.\n\nTime expected to complete this unit: **4 hours**\n"},{"_path":"/modules/performance-optimization-and-parallelization/slides-performance-optimization-and-parallelization","_dir":"performance-optimization-and-parallelization","_draft":false,"_partial":false,"_locale":"","title":"Performance-optimization-and-parallelization","description":"===","type":"slides","order":3,"body":{"type":"root","children":[{"type":"element","tag":"h1","props":{"id":"github-the-basics"},"children":[{"type":"text","value":"GitHub the basics"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"h2","props":{"id":"performance-optimization-and-parallelization"},"children":[{"type":"text","value":"Performance-optimization-and-parallelization 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"}]}},"_type":"markdown","_id":"local_fs:modules:Performance-optimization-and-parallelization:slides-performance-optimization-and-parallelization.md","_source":"local_fs","_file":"modules/Performance-optimization-and-parallelization/slides-performance-optimization-and-parallelization.md","_extension":"md","plainText":"---\ntitle: Performance-optimization-and-parallelization\ntype: slides\norder: 3\n---\n\n\n\n# GitHub the basics\n\n===\n\n\n\n## Performance-optimization-and-parallelization \n \n\n===\n\n\n\nwww.esciencecenter.nl\n\ninfo@esciencecenter.nl\n \n020 - 460 47 70 \n"},{"_path":"/modules/performance-optimization-and-parallelization/teaching_material","_dir":"performance-optimization-and-parallelization","_draft":false,"_partial":false,"_locale":"","title":"Teaching Material","description":"","type":"exercise","order":5,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"teaching-material"},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Teaching Material"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Introduction to Parallel computing, Livermore Computing Center "},{"type":"element","tag":"a","props":{"href":"https://hpc.llnl.gov/documentation/tutorials/introduction-parallel-computing-tutorial","rel":["nofollow"]},"children":[{"type":"text","value":"Online Tutorial"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"threading vs multiprocessing in python "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=AZnGRKFUU0c","rel":["nofollow"]},"children":[{"type":"text","value":"Talk"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Performing Asynchronous I/O Bound Operations (Jeffrey Richter) "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=hB0K1JWFoqs","rel":["nofollow"]},"children":[{"type":"text","value":"Talk"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Programming Paradigms material proposed by the NLeSC external Training: intermediate Research software Development "},{"type":"element","tag":"a","props":{"href":"https://carpentries-incubator.github.io/lesson-parallel-python/","rel":["nofollow"]},"children":[{"type":"text","value":"online Material"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"teaching-material","depth":3,"text":"Teaching Material"}]}},"_type":"markdown","_id":"local_fs:modules:Performance-optimization-and-parallelization:teaching_material.md","_source":"local_fs","_file":"modules/Performance-optimization-and-parallelization/teaching_material.md","_extension":"md","plainText":"---\ntitle: Teaching Material \ntype: exercise\norder: 5\n---\n\n### **Teaching Material**\n\n\nIntroduction to Parallel computing, Livermore Computing Center [Online Tutorial](https://hpc.llnl.gov/documentation/tutorials/introduction-parallel-computing-tutorial)\n\nthreading vs multiprocessing in python [Talk](https://www.youtube.com/watch?v=AZnGRKFUU0c)\n\nPerforming Asynchronous I/O Bound Operations (Jeffrey Richter) [Talk](https://www.youtube.com/watch?v=hB0K1JWFoqs) \n\nProgramming Paradigms material proposed by the NLeSC external Training: intermediate Research software Development [online Material](https://carpentries-incubator.github.io/lesson-parallel-python/) \n\n"},{"_path":"/modules/programming-paradigms/context","_dir":"programming-paradigms","_draft":false,"_partial":false,"_locale":"","title":"Background unit 2","description":"","type":"reading","order":1,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"background"},"children":[{"type":"text","value":"Background"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"For Unit 2, we selected a number of references which will help you go beyond just knowing the syntax of the language.\n"},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=Pg3UeB-5FdA","rel":["nofollow"]},"children":[{"type":"text","value":"teaching material 1"}]},{"type":"text","value":" is a talk given at a conference in 2017 which goes over the common programming paradigm and explains the similarities and the differences.\n"},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=Ps8jOj7diA0","rel":["nofollow"]},"children":[{"type":"text","value":"teaching material 2"}]},{"type":"text","value":" is the first lecture of course at Stanford university which aims to teach several programming languages.\nThe lecture is a general introduction to the course, it stresses the intellectual value of learning a programming language which is to study the paradigm they represent, so do not focus on the details but more on how the lecturer makes the link between a language and its paradigm."}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"background","depth":3,"text":"Background"}]}},"_type":"markdown","_id":"local_fs:modules:Programming-paradigms:context.md","_source":"local_fs","_file":"modules/Programming-paradigms/context.md","_extension":"md","plainText":"---\ntitle: Background unit 2 \ntype: reading\norder: 1\n---\n\n### Background \n\nFor Unit 2, we selected a number of references which will help you go beyond just knowing the syntax of the language.\n[teaching material 1](https://www.youtube.com/watch?v=Pg3UeB-5FdA) is a talk given at a conference in 2017 which goes over the common programming paradigm and explains the similarities and the differences. \n[teaching material 2](https://www.youtube.com/watch?v=Ps8jOj7diA0) is the first lecture of course at Stanford university which aims to teach several programming languages. \nThe lecture is a general introduction to the course, it stresses the intellectual value of learning a programming language which is to study the paradigm they represent, so do not focus on the details but more on how the lecturer makes the link between a language and its paradigm.\n"},{"_path":"/modules/programming-paradigms/further_reading","_dir":"programming-paradigms","_draft":false,"_partial":false,"_locale":"","title":"Further Reading","description":"","type":"reading","order":5,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"further-reading"},"children":[{"type":"text","value":"Further Reading"}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"further-reading","depth":3,"text":"Further Reading"}]}},"_type":"markdown","_id":"local_fs:modules:Programming-paradigms:further_reading.md","_source":"local_fs","_file":"modules/Programming-paradigms/further_reading.md","_extension":"md","plainText":"---\ntitle: Further Reading \ntype: reading\norder: 5\n---\n\n### Further Reading\n"},{"_path":"/modules/programming-paradigms","_dir":"modules","_draft":false,"_partial":false,"_locale":"","title":"Programming paradigms","description":"Photo by TODO on Unsplash","category":"Module1","order":2,"author":"eScience Center","abstract":null,"thumbnail":"programming-paradigms.jpeg","visibility":"visible","body":{"type":"root","children":[{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Photo by "},{"type":"element","tag":"a","props":{"href":""},"children":[{"type":"text","value":"TODO"}]},{"type":"text","value":" on "},{"type":"element","tag":"a","props":{"href":"https://csharp-station.com/Tutorial/CSharp/Lesson19"},"children":[{"type":"text","value":"Unsplash"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:Programming-paradigms:index.md","_source":"local_fs","_file":"modules/Programming-paradigms/index.md","_extension":"md","plainText":"---\ntitle: Programming paradigms \ncategory: Module1\norder: 2 \nauthor: eScience Center\nabstract: \nthumbnail: \"programming-paradigms.jpeg\"\nvisibility: visible\n---\n\n\nPhoto by TODO on Unsplash\n \n \n"},{"_path":"/modules/programming-paradigms/info","_dir":"programming-paradigms","_draft":false,"_partial":false,"_locale":"","title":"Learning objectives","description":"Unit 2 aims to raise your awareness about the fact that when you choose a programming language for your project.","type":"info","order":0,"body":{"type":"root","children":[{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Unit 2 aims to raise your awareness about the fact that when you choose a programming language for your project."}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Analyze Programming Paradigms: Learners will be able to compare and contrast common programming paradigms by identifying their key characteristics, similarities, and differences."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Understand the Intellectual Value of Programming Languages: Learners will be able to explain the intellectual benefits of studying programming languages by linking specific languages to the paradigms they represent."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Develop Critical Thinking Skills in Paradigm Application: Learners will be able to evaluate the suitability of different programming paradigms for various problem-solving scenarios."}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Note"}]},{"type":"text","value":": It is advised that you develop more in-depth knowledge about the programming paradigm you will use during the project which is beyond the scope of this unit."}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:Programming-paradigms:info.md","_source":"local_fs","_file":"modules/Programming-paradigms/info.md","_extension":"md","plainText":"---\ntitle: Learning objectives\ntype: info\norder: 0\n---\n\nUnit 2 aims to raise your awareness about the fact that when you choose a programming language for your project.\n\n- Analyze Programming Paradigms: Learners will be able to compare and contrast common programming paradigms by identifying their key characteristics, similarities, and differences.\n\n- Understand the Intellectual Value of Programming Languages: Learners will be able to explain the intellectual benefits of studying programming languages by linking specific languages to the paradigms they represent.\n\n- Develop Critical Thinking Skills in Paradigm Application: Learners will be able to evaluate the suitability of different programming paradigms for various problem-solving scenarios.\n\n**Note**: It is advised that you develop more in-depth knowledge about the programming paradigm you will use during the project which is beyond the scope of this unit.\n"},{"_path":"/modules/programming-paradigms/instructions","_dir":"programming-paradigms","_draft":false,"_partial":false,"_locale":"","title":"Unit 2 Instructions","description":"","type":"reading","order":2,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"instructions"},"children":[{"type":"text","value":"Instructions"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"To complete Unit 2, you are expected to:"}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Please send the list of questions to your coach one day before."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Practical hands-on for this unit are provided by the material used for eScience Center External Training program "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"3"}]},{"type":"text","value":".\nYou can do the hands-on individually or join a the eScience Center external workshop.\nCheck the eScience "},{"type":"element","tag":"a","props":{"href":"https://www.esciencecenter.nl/digital-skills/","rel":["nofollow"]},"children":[{"type":"text","value":"Digital-skills"}]},{"type":"text","value":" for the workshops schedule,\ncontact the "},{"type":"element","tag":"a","props":{"href":"mailto:training@esciencecenter.nl"},"children":[{"type":"text","value":"eScience Center Training"}]},{"type":"text","value":" to check whether there is still space for you to join."}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"instructions","depth":3,"text":"Instructions"}]}},"_type":"markdown","_id":"local_fs:modules:Programming-paradigms:instructions.md","_source":"local_fs","_file":"modules/Programming-paradigms/instructions.md","_extension":"md","plainText":"---\ntitle: Unit 2 Instructions \ntype: reading\norder: 2\n---\n\n### Instructions \n\nTo complete Unit 2, you are expected to:\n\n - Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach.\n\n - Please send the list of questions to your coach one day before.\n\n - Practical hands-on for this unit are provided by the material used for eScience Center External Training program [3]. \n You can do the hands-on individually or join a the eScience Center external workshop. \n Check the eScience [Digital-skills](https://www.esciencecenter.nl/digital-skills/) for the workshops schedule, \n contact the [eScience Center Training](mailto:training@esciencecenter.nl) to check whether there is still space for you to join.\n"},{"_path":"/modules/programming-paradigms/slides-programing-paradigms","_dir":"programming-paradigms","_draft":false,"_partial":false,"_locale":"","title":"Programming paradigms","description":"===","type":"slides","order":3,"body":{"type":"root","children":[{"type":"element","tag":"h1","props":{"id":"programming-paradigms"},"children":[{"type":"text","value":"Programming paradigms"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"h2","props":{"id":"programming-paradigms"},"children":[{"type":"text","value":"Programming paradigms "},{"type":"element","tag":"todo","props":{},"children":[]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"http://www.esciencecenter.nl","rel":["nofollow"]},"children":[{"type":"text","value":"www.esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"mailto:info@esciencecenter.nl"},"children":[{"type":"text","value":"info@esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"020 - 460 47 70"}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"programming-paradigms","depth":2,"text":"Programming paradigms "}]}},"_type":"markdown","_id":"local_fs:modules:Programming-paradigms:slides-programing-paradigms.md","_source":"local_fs","_file":"modules/Programming-paradigms/slides-programing-paradigms.md","_extension":"md","plainText":"---\ntitle: Programming paradigms \ntype: slides\norder: 3\n---\n\n\n\n# Programming paradigms\n\n===\n\n\n\n## Programming paradigms \n \n\n===\n\n\n\nwww.esciencecenter.nl\n\ninfo@esciencecenter.nl\n \n020 - 460 47 70 \n"},{"_path":"/modules/programming-paradigms/teaching_material","_dir":"programming-paradigms","_draft":false,"_partial":false,"_locale":"","title":"Teaching Material","description":"","type":"exercise","order":3,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"teaching-material"},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Teaching Material"}]}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Programming Across Paradigms, by AnjanaVakil GOTO conf. 2017 "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=Pg3UeB-5FdA","rel":["nofollow"]},"children":[{"type":"text","value":"Talk"}]},{"type":"text","value":" "},{"type":"element","tag":"a","props":{"href":"https://files.gotocon.com/uploads/slides/conference_3/78/original/Programming%20across%20Paradigms.pdf","rel":["nofollow"]},"children":[{"type":"text","value":"Slides"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Programming Paradigms, Jerry Cain, Stanford university "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=Ps8jOj7diA0","rel":["nofollow"]},"children":[{"type":"text","value":"Lecture 1"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Programming Paradigms material proposed by the NLeSC external Training: intermediate Research software Development "},{"type":"element","tag":"a","props":{"href":"https://carpentries-incubator.github.io/python-intermediate-development/33-programming-paradigms/index.html","rel":["nofollow"]},"children":[{"type":"text","value":"online Material"}]}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Time expected to complete this unit: "},{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"4 hours"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"teaching-material","depth":3,"text":"Teaching Material"}]}},"_type":"markdown","_id":"local_fs:modules:Programming-paradigms:teaching_material.md","_source":"local_fs","_file":"modules/Programming-paradigms/teaching_material.md","_extension":"md","plainText":"---\ntitle: Teaching Material \ntype: exercise\norder: 3\n---\n\n### **Teaching Material**\n\n\n- Programming Across Paradigms, by AnjanaVakil GOTO conf. 2017 [Talk](https://www.youtube.com/watch?v=Pg3UeB-5FdA) [Slides](https://files.gotocon.com/uploads/slides/conference_3/78/original/Programming%20across%20Paradigms.pdf)\n- Programming Paradigms, Jerry Cain, Stanford university [Lecture 1](https://www.youtube.com/watch?v=Ps8jOj7diA0)\n- Programming Paradigms material proposed by the NLeSC external Training: intermediate Research software Development [online Material](https://carpentries-incubator.github.io/python-intermediate-development/33-programming-paradigms/index.html) \n \nTime expected to complete this unit: **4 hours** \n"},{"_path":"/modules/readability-and-code-formating/context","_dir":"readability-and-code-formating","_draft":false,"_partial":false,"_locale":"","title":"Background unit 3","description":"","type":"reading","order":1,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"background"},"children":[{"type":"text","value":"Background"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Mode readability is an important quality of good code, it is a subjective topic which varies between developers. If code is easy to read, it will be easy to understand and easy to debug, maintain and extend, "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"1"}]},{"type":"text","value":" short video on the importance of code formatting. Writing complicated code is easy, writing simple code is harder and takes longer. Learning to make code readable/understandable is difficult for inexperienced developers because it can be difficult to quantify the differences between readable code and un-readable code."}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"background","depth":3,"text":"Background"}]}},"_type":"markdown","_id":"local_fs:modules:Readability-and-code-formating:context.md","_source":"local_fs","_file":"modules/Readability-and-code-formating/context.md","_extension":"md","plainText":"---\ntitle: Background unit 3 \ntype: reading\norder: 1\n---\n\n### Background \nMode readability is an important quality of good code, it is a subjective topic which varies between developers. If code is easy to read, it will be easy to understand and easy to debug, maintain and extend, [1] short video on the importance of code formatting. Writing complicated code is easy, writing simple code is harder and takes longer. Learning to make code readable/understandable is difficult for inexperienced developers because it can be difficult to quantify the differences between readable code and un-readable code. \n"},{"_path":"/modules/readability-and-code-formating/further_reading","_dir":"readability-and-code-formating","_draft":false,"_partial":false,"_locale":"","title":"Further Reading","description":"","type":"reading","order":5,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"further-reading"},"children":[{"type":"text","value":"Further Reading"}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"further-reading","depth":3,"text":"Further Reading"}]}},"_type":"markdown","_id":"local_fs:modules:Readability-and-code-formating:further_reading.md","_source":"local_fs","_file":"modules/Readability-and-code-formating/further_reading.md","_extension":"md","plainText":"---\ntitle: Further Reading \ntype: reading\norder: 5\n---\n\n### Further Reading\n\n"},{"_path":"/modules/readability-and-code-formating","_dir":"modules","_draft":false,"_partial":false,"_locale":"","title":"Readability and code formatting","description":"Photo by TODO on Unsplash","category":"Module2","order":3,"author":"eScience Center","abstract":null,"thumbnail":"Code-readability.png","visibility":"visible","body":{"type":"root","children":[{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Photo by "},{"type":"element","tag":"a","props":{"href":""},"children":[{"type":"text","value":"TODO"}]},{"type":"text","value":" on "},{"type":"element","tag":"a","props":{"href":"https://csharp-station.com/Tutorial/CSharp/Lesson19"},"children":[{"type":"text","value":"Unsplash"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:Readability-and-code-formating:index.md","_source":"local_fs","_file":"modules/Readability-and-code-formating/index.md","_extension":"md","plainText":"---\ntitle: Readability and code formatting\ncategory: Module2\norder: 3 \nauthor: eScience Center\nabstract: \nthumbnail: \"Code-readability.png\"\nvisibility: visible\n---\n\n\nPhoto by TODO on Unsplash\n \n \n"},{"_path":"/modules/readability-and-code-formating/info","_dir":"readability-and-code-formating","_draft":false,"_partial":false,"_locale":"","title":"Learning objectives","description":"","type":"info","order":0,"body":{"type":"root","children":[{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Understand the Importance of Code Readability: Learners will be able to explain how readable code enhances debugging, maintenance, and extensibility, and why it is essential for collaborative and long-term software development."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Apply Principles of Clean Code and Formatting: Learners will be able to write readable and well-formatted code by incorporating concepts from Clean Code by Robert C. Martin."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Follow Python-Specific Coding Standards: Learners will be able to apply the PEP8 guidelines to improve the readability and consistency of Python code, recognizing its relevance to common practices in modern programming environments."}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:Readability-and-code-formating:info.md","_source":"local_fs","_file":"modules/Readability-and-code-formating/info.md","_extension":"md","plainText":"---\ntitle: Learning objectives\ntype: info\norder: 0\n---\n\n- Understand the Importance of Code Readability: Learners will be able to explain how readable code enhances debugging, maintenance, and extensibility, and why it is essential for collaborative and long-term software development.\n\n- Apply Principles of Clean Code and Formatting: Learners will be able to write readable and well-formatted code by incorporating concepts from Clean Code by Robert C. Martin.\n\n- Follow Python-Specific Coding Standards: Learners will be able to apply the PEP8 guidelines to improve the readability and consistency of Python code, recognizing its relevance to common practices in modern programming environments.\n"},{"_path":"/modules/readability-and-code-formating/instructions","_dir":"readability-and-code-formating","_draft":false,"_partial":false,"_locale":"","title":"Unit 3 Instructions","description":"","type":"reading","order":2,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"instructions"},"children":[{"type":"text","value":"Instructions"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"For Unit 3, we selected a couple of references which will help to attract your attention to the importance of software readability and code formatting. "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"2"}]},{"type":"text","value":" is series of 10 videos based on the book “Clean Code by Robert C. Martin”. Like Unit 2, "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"3"}]},{"type":"text","value":" points to the Code Quality Chapter of the Turing way which convers enough details on the topic help you write a readable and will formatted code. Reference "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"4"}]},{"type":"text","value":" is an extra reference for Python programmers, which is quite common these days inside and outside the Center, it is a quick overview of PEP8 code."}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"To complete Unit 3, you are expected to:"}]}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Read/watch the suggested "},{"type":"element","tag":"a","props":{"href":"http://localhost:3000/internal-training/readability-and-code-formatting/teaching_material","rel":["nofollow"]},"children":[{"type":"text","value":"teaching material"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Please send the list of questions to your coach one day before the weekly meetings.."}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Time expected to complete this unit: "},{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"4 hours"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"instructions","depth":3,"text":"Instructions"}]}},"_type":"markdown","_id":"local_fs:modules:Readability-and-code-formating:instructions.md","_source":"local_fs","_file":"modules/Readability-and-code-formating/instructions.md","_extension":"md","plainText":"---\ntitle: Unit 3 Instructions \ntype: reading\norder: 2\n---\n\n### Instructions \n\nFor Unit 3, we selected a couple of references which will help to attract your attention to the importance of software readability and code formatting. [2] is series of 10 videos based on the book “Clean Code by Robert C. Martin”. Like Unit 2, [3] points to the Code Quality Chapter of the Turing way which convers enough details on the topic help you write a readable and will formatted code. Reference [4] is an extra reference for Python programmers, which is quite common these days inside and outside the Center, it is a quick overview of PEP8 code.\n \n**To complete Unit 3, you are expected to:** \n\n - Read/watch the suggested [teaching material](http://localhost:3000/internal-training/readability-and-code-formatting/teaching_material) \n - Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach. \n - Please send the list of questions to your coach one day before the weekly meetings.. \n\nTime expected to complete this unit: **4 hours**\n"},{"_path":"/modules/readability-and-code-formating/slides-readability-and-code-formating","_dir":"readability-and-code-formating","_draft":false,"_partial":false,"_locale":"","title":"Readability-and-code-formating","description":"===","type":"slides","order":3,"body":{"type":"root","children":[{"type":"element","tag":"h1","props":{"id":"readability-and-code-formating"},"children":[{"type":"text","value":"Readability-and-code-formating"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"h2","props":{"id":"readability-and-code-formating"},"children":[{"type":"text","value":"Readability-and-code-formating "},{"type":"element","tag":"todo","props":{},"children":[]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"http://www.esciencecenter.nl","rel":["nofollow"]},"children":[{"type":"text","value":"www.esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"mailto:info@esciencecenter.nl"},"children":[{"type":"text","value":"info@esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"020 - 460 47 70"}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"readability-and-code-formating","depth":2,"text":"Readability-and-code-formating "}]}},"_type":"markdown","_id":"local_fs:modules:Readability-and-code-formating:slides-readability-and-code-formating.md","_source":"local_fs","_file":"modules/Readability-and-code-formating/slides-readability-and-code-formating.md","_extension":"md","plainText":"---\ntitle: Readability-and-code-formating \ntype: slides\norder: 3\n---\n\n\n\n# Readability-and-code-formating\n\n===\n\n\n\n## Readability-and-code-formating \n \n\n===\n\n\n\nwww.esciencecenter.nl\n\ninfo@esciencecenter.nl\n \n020 - 460 47 70 \n"},{"_path":"/modules/readability-and-code-formating/teaching_material","_dir":"readability-and-code-formating","_draft":false,"_partial":false,"_locale":"","title":"Teaching Material","description":"","type":"exercise","order":3,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"teaching-material"},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Teaching Material"}]}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Python Code Formatting: The Key to Efficient Readability"},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=tpHH6OiA3Wk","rel":["nofollow"]},"children":[{"type":"text","value":"YouTube video"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Code Clean Series – based on the book “Clean Code by Robert C. Martin”"},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=-xiEX7AEJ_o&list=PLz1zqwR7fgeHv5z_phgWhC_BPOJuSaOZe&index=1&t=0s","rel":["nofollow"]},"children":[{"type":"text","value":"Playlist"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"The Turing way: code quality chapter "},{"type":"element","tag":"a","props":{"href":"https://the-turing-way.netlify.app/reproducible-research/code-quality.html","rel":["nofollow"]},"children":[{"type":"text","value":"Online book"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Writing Beautiful Python - An Overview of PEP 8 "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=5zrlZGyEwMM","rel":["nofollow"]},"children":[{"type":"text","value":"PyCon UK"}]}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"teaching-material","depth":3,"text":"Teaching Material"}]}},"_type":"markdown","_id":"local_fs:modules:Readability-and-code-formating:teaching_material.md","_source":"local_fs","_file":"modules/Readability-and-code-formating/teaching_material.md","_extension":"md","plainText":"---\ntitle: Teaching Material \ntype: exercise\norder: 3\n---\n\n### **Teaching Material**\n\n- Python Code Formatting: The Key to Efficient Readability[YouTube video](https://www.youtube.com/watch?v=tpHH6OiA3Wk)\n- Code Clean Series – based on the book “Clean Code by Robert C. Martin”[Playlist](https://www.youtube.com/watch?v=-xiEX7AEJ_o&list=PLz1zqwR7fgeHv5z_phgWhC_BPOJuSaOZe&index=1&t=0s)\n- The Turing way: code quality chapter [Online book](https://the-turing-way.netlify.app/reproducible-research/code-quality.html)\n- Writing Beautiful Python - An Overview of PEP 8 [PyCon UK](https://www.youtube.com/watch?v=5zrlZGyEwMM)\n"},{"_path":"/modules/requirement-engineering/context","_dir":"requirement-engineering","_draft":false,"_partial":false,"_locale":"","title":"Background unit 5","description":"","type":"reading","order":1,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"background"},"children":[{"type":"text","value":"Background"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Requirements Engineering is a fundamental element of software development, it has evolved to become a critical process that ensures the successful implementation of software projects. At the eScience center, we believe that great emphasis should be put on requirements engineering in all our software development projects. This is because requirements engineering helps to ensure that the software we develop meets the needs of the users and stakeholders, thereby increasing the likelihood of project success and user satisfaction."}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"background","depth":3,"text":"Background"}]}},"_type":"markdown","_id":"local_fs:modules:Requirement-engineering:context.md","_source":"local_fs","_file":"modules/Requirement-engineering/context.md","_extension":"md","plainText":"---\ntitle: Background unit 5 \ntype: reading\norder: 1\n---\n\n### Background \nRequirements Engineering is a fundamental element of software development, it has evolved to become a critical process that ensures the successful implementation of software projects. At the eScience center, we believe that great emphasis should be put on requirements engineering in all our software development projects. This is because requirements engineering helps to ensure that the software we develop meets the needs of the users and stakeholders, thereby increasing the likelihood of project success and user satisfaction.\n"},{"_path":"/modules/requirement-engineering/further_reading","_dir":"requirement-engineering","_draft":false,"_partial":false,"_locale":"","title":"Further Reading","description":"","type":"reading","order":5,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"further-reading"},"children":[{"type":"text","value":"Further Reading"}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"RequirementEngineering "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/playlist?list=PLUgFMzuE8lQDeixpbP3s6EyQx8PiNdeQL","rel":["nofollow"]},"children":[{"type":"text","value":"Full course"}]}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"further-reading","depth":3,"text":"Further Reading"}]}},"_type":"markdown","_id":"local_fs:modules:Requirement-engineering:further_reading.md","_source":"local_fs","_file":"modules/Requirement-engineering/further_reading.md","_extension":"md","plainText":"---\ntitle: Further Reading \ntype: reading\norder: 5\n---\n\n### Further Reading\n\n- RequirementEngineering [Full course](https://www.youtube.com/playlist?list=PLUgFMzuE8lQDeixpbP3s6EyQx8PiNdeQL)\n"},{"_path":"/modules/requirement-engineering","_dir":"modules","_draft":false,"_partial":false,"_locale":"","title":"Requirement engineering","description":"Photo by TODO on Unsplash","category":"Module2","order":5,"author":"eScience Center","abstract":null,"thumbnail":"requirements-engineering.jpg","visibility":"visible","body":{"type":"root","children":[{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Photo by "},{"type":"element","tag":"a","props":{"href":""},"children":[{"type":"text","value":"TODO"}]},{"type":"text","value":" on "},{"type":"element","tag":"a","props":{"href":"https://csharp-station.com/Tutorial/CSharp/Lesson19"},"children":[{"type":"text","value":"Unsplash"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:Requirement-engineering:index.md","_source":"local_fs","_file":"modules/Requirement-engineering/index.md","_extension":"md","plainText":"---\ntitle: Requirement engineering \ncategory: Module2\norder: 5\nauthor: eScience Center\nabstract: \nthumbnail: \"requirements-engineering.jpg\"\nvisibility: visible\n---\n\n\nPhoto by TODO on Unsplash\n \n \n"},{"_path":"/modules/requirement-engineering/info","_dir":"requirement-engineering","_draft":false,"_partial":false,"_locale":"","title":"Learning objectives","description":"","type":"info","order":0,"body":{"type":"root","children":[{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Understand the Importance of Requirements Engineering: Learners will be able to explain the role of requirements engineering in ensuring that software meets the needs of users and stakeholders, contributing to the success and satisfaction of software projects."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Explore Agile Methodologies in Software Development: Learners will be able to describe key Agile principles and how they are applied in the context of requirements engineering to enhance flexibility and responsiveness in software development."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Apply Requirements Engineering Practices in Software Projects"},{"type":"element","tag":"div","props":{},"children":[]},{"type":"text","value":" will be able to apply the principles of requirements engineering and Agile methodologies to develop clear, actionable requirements that align with user and stakeholder needs, improving the effectiveness of software development processes."},{"type":"element","tag":"br","props":{},"children":[]}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:Requirement-engineering:info.md","_source":"local_fs","_file":"modules/Requirement-engineering/info.md","_extension":"md","plainText":"---\ntitle: Learning objectives\ntype: info\norder: 0\n---\n\n- Understand the Importance of Requirements Engineering: Learners will be able to explain the role of requirements engineering in ensuring that software meets the needs of users and stakeholders, contributing to the success and satisfaction of software projects.\n\n- Explore Agile Methodologies in Software Development: Learners will be able to describe key Agile principles and how they are applied in the context of requirements engineering to enhance flexibility and responsiveness in software development.\n\n- Apply Requirements Engineering Practices in Software Projects:Learners will be able to apply the principles of requirements engineering and Agile methodologies to develop clear, actionable requirements that align with user and stakeholder needs, improving the effectiveness of software development processes.\n"},{"_path":"/modules/requirement-engineering/instructions","_dir":"requirement-engineering","_draft":false,"_partial":false,"_locale":"","title":"Unit 5 Instructions","description":"","type":"reading","order":2,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"instructions"},"children":[{"type":"text","value":"Instructions"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"For Unit 5, we have selected several videos from a comprehensive playlist that will help you develop a solid understanding of the principles of Software Requirements Engineering and Agile methodologies."}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"To complete Unit 5, you are expected to:"}]}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Read/watch the suggested "},{"type":"element","tag":"a","props":{"href":"http://localhost:3000/internal-training/Requirement-engineering/teaching_material","rel":["nofollow"]},"children":[{"type":"text","value":"teaching material"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Please send the list of questions to your coach one day before the weekly meetings.."}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Time expected to complete this unit: "},{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"4 hours"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"instructions","depth":3,"text":"Instructions"}]}},"_type":"markdown","_id":"local_fs:modules:Requirement-engineering:instructions.md","_source":"local_fs","_file":"modules/Requirement-engineering/instructions.md","_extension":"md","plainText":"---\ntitle: Unit 5 Instructions \ntype: reading\norder: 2\n---\n\n### Instructions \n\nFor Unit 5, we have selected several videos from a comprehensive playlist that will help you develop a solid understanding of the principles of Software Requirements Engineering and Agile methodologies. \n\n**To complete Unit 5, you are expected to:** \n\n - Read/watch the suggested [teaching material](http://localhost:3000/internal-training/Requirement-engineering/teaching_material) \n - Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach. \n - Please send the list of questions to your coach one day before the weekly meetings.. \n\nTime expected to complete this unit: **4 hours**\n"},{"_path":"/modules/requirement-engineering/slides-requirement-engineering","_dir":"requirement-engineering","_draft":false,"_partial":false,"_locale":"","title":"Requirement-engineering","description":"===","type":"slides","order":3,"body":{"type":"root","children":[{"type":"element","tag":"h1","props":{"id":"requirement-engineering"},"children":[{"type":"text","value":"Requirement-engineering"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"h2","props":{"id":"requirement-engineering"},"children":[{"type":"text","value":"Requirement-engineering "},{"type":"element","tag":"todo","props":{},"children":[]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"http://www.esciencecenter.nl","rel":["nofollow"]},"children":[{"type":"text","value":"www.esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"mailto:info@esciencecenter.nl"},"children":[{"type":"text","value":"info@esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"020 - 460 47 70"}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"requirement-engineering","depth":2,"text":"Requirement-engineering "}]}},"_type":"markdown","_id":"local_fs:modules:Requirement-engineering:slides-requirement-engineering.md","_source":"local_fs","_file":"modules/Requirement-engineering/slides-requirement-engineering.md","_extension":"md","plainText":"---\ntitle: Requirement-engineering \ntype: slides\norder: 3\n---\n\n\n\n# Requirement-engineering\n\n===\n\n\n\n## Requirement-engineering \n \n\n===\n\n\n\nwww.esciencecenter.nl\n\ninfo@esciencecenter.nl\n \n020 - 460 47 70 \n"},{"_path":"/modules/requirement-engineering/teaching_material","_dir":"requirement-engineering","_draft":false,"_partial":false,"_locale":"","title":"Teaching Material","description":"","type":"exercise","order":3,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"teaching-material"},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Teaching Material"}]}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Requirement engineering: "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=ZzO3oUA7pNw","rel":["nofollow"]},"children":[{"type":"text","value":"Process and Roles"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Requirement engineering: "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=fYAHXktQ2uI","rel":["nofollow"]},"children":[{"type":"text","value":"frameworks, templates and standards "}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"A week in a life of a Scrum Master "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=vwT3Aq5tl2Y","rel":["nofollow"]},"children":[{"type":"text","value":"YouTube lecture, 20mn"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Scrum Methodology | Agile Scrum Framework"},{"type":"element","tag":"a","props":{"href":""},"children":[]}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"teaching-material","depth":3,"text":"Teaching Material"}]}},"_type":"markdown","_id":"local_fs:modules:Requirement-engineering:teaching_material.md","_source":"local_fs","_file":"modules/Requirement-engineering/teaching_material.md","_extension":"md","plainText":"---\ntitle: Teaching Material \ntype: exercise\norder: 3\n---\n\n### **Teaching Material**\n\n- Requirement engineering: [Process and Roles](https://www.youtube.com/watch?v=ZzO3oUA7pNw)\n- Requirement engineering: [frameworks, templates and standards ](https://www.youtube.com/watch?v=fYAHXktQ2uI)\n- A week in a life of a Scrum Master [YouTube lecture, 20mn](https://www.youtube.com/watch?v=vwT3Aq5tl2Y) \n- Scrum Methodology | Agile Scrum Framework[]()\n"},{"_path":"/modules/research-software/context","_dir":"research-software","_draft":false,"_partial":false,"_locale":"","title":"Background unit 1","description":"","type":"reading","order":1,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"background"},"children":[{"type":"text","value":"Background"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Coding is just one element of the research software lifecycle. Successful research software starts first with intensive interactions with the problem owners (domain scientists) and ends with reaching out to the potential users, and there are many phases in between. In this unit we hope to raise awareness among the RSEs of the importance of certain aspects which cover the entire research software lifecycle and will have a crucial impact on the success of a given research software."}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"background","depth":3,"text":"Background"}]}},"_type":"markdown","_id":"local_fs:modules:Research-software:context.md","_source":"local_fs","_file":"modules/Research-software/context.md","_extension":"md","plainText":"---\ntitle: Background unit 1 \ntype: reading\norder: 1\n---\n\n### Background \nCoding is just one element of the research software lifecycle. Successful research software starts first with intensive interactions with the problem owners (domain scientists) and ends with reaching out to the potential users, and there are many phases in between. In this unit we hope to raise awareness among the RSEs of the importance of certain aspects which cover the entire research software lifecycle and will have a crucial impact on the success of a given research software. \n"},{"_path":"/modules/research-software/further_reading","_dir":"research-software","_draft":false,"_partial":false,"_locale":"","title":"Further Reading","description":"","type":"reading","order":5,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"further-reading"},"children":[{"type":"text","value":"Further Reading"}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"further-reading","depth":3,"text":"Further Reading"}]}},"_type":"markdown","_id":"local_fs:modules:Research-software:further_reading.md","_source":"local_fs","_file":"modules/Research-software/further_reading.md","_extension":"md","plainText":"---\ntitle: Further Reading \ntype: reading\norder: 5\n---\n\n### Further Reading\n"},{"_path":"/modules/research-software","_dir":"modules","_draft":false,"_partial":false,"_locale":"","title":"Research software","description":"Photo by TODO on Unsplash","category":"Module1","order":1,"author":"eScience Center","abstract":null,"thumbnail":"Research-software.jpeg","visibility":"visible","body":{"type":"root","children":[{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Photo by "},{"type":"element","tag":"a","props":{"href":""},"children":[{"type":"text","value":"TODO"}]},{"type":"text","value":" on "},{"type":"element","tag":"a","props":{"href":"https://csharp-station.com/Tutorial/CSharp/Lesson19"},"children":[{"type":"text","value":"Unsplash"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:Research-software:index.md","_source":"local_fs","_file":"modules/Research-software/index.md","_extension":"md","plainText":"---\ntitle: Research software \ncategory: Module1\norder: 1 \nauthor: eScience Center\nabstract: \nthumbnail: \"Research-software.jpeg\"\nvisibility: visible\n---\n\n\nPhoto by TODO on Unsplash\n \n \n"},{"_path":"/modules/research-software/info","_dir":"research-software","_draft":false,"_partial":false,"_locale":"","title":"Learning objectives","description":"","type":"info","order":0,"body":{"type":"root","children":[{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"after completing Unit 1 you will have learned\n"},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"the basics of reproducible research"}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"the basics of project design"}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"some important eScience best practices."}]}]}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Note"}]},{"type":"text","value":": Unit 1 does not involve practical hands-on. It involve reading proposed teaching material and discussing it within a group or with your coach."}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:Research-software:info.md","_source":"local_fs","_file":"modules/Research-software/info.md","_extension":"md","plainText":"---\ntitle: Learning objectives\ntype: info\norder: 0\n---\n- after completing Unit 1 you will have learned \n - the basics of reproducible research \n - the basics of project design \n - some important eScience best practices. \n\n **Note**: Unit 1 does not involve practical hands-on. It involve reading proposed teaching material and discussing it within a group or with your coach.\n\n"},{"_path":"/modules/research-software/instructions","_dir":"research-software","_draft":false,"_partial":false,"_locale":"","title":"Unit 1 Instructions","description":"","type":"reading","order":2,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"instructions"},"children":[{"type":"text","value":"Instructions"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"As an employee of the eScience Center a must-read document is the Netherlands eScience Center Guide "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"1"}]},{"type":"text","value":", it contains a gentle introduction to projects and software development at the Center. The content of the guide goes beyond the scope of this unit. Certain topics listed briefly in the guide will be discussed in more detail in the following units. To broaden your knowledge on research software development in general we do encourage you to read two other references namely the Turing way "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"2"}]},{"type":"text","value":" and the Sustain 2021 report "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"3"}]},{"type":"text","value":"."}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"To complete Unit 1, you are expected to:"}]}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Read/watch the suggested "},{"type":"element","tag":"a","props":{"href":"http://localhost:3000/internal-training/modules/research-software/teaching_material","rel":["nofollow"]},"children":[{"type":"text","value":"teaching material"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Please send the list of questions to your coach one day before the weekly meetings.."}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Time expected to complete this unit: "},{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"4 hours"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"instructions","depth":3,"text":"Instructions"}]}},"_type":"markdown","_id":"local_fs:modules:Research-software:instructions.md","_source":"local_fs","_file":"modules/Research-software/instructions.md","_extension":"md","plainText":"---\ntitle: Unit 1 Instructions \ntype: reading\norder: 2\n---\n\n### Instructions \n\nAs an employee of the eScience Center a must-read document is the Netherlands eScience Center Guide [1], it contains a gentle introduction to projects and software development at the Center. The content of the guide goes beyond the scope of this unit. Certain topics listed briefly in the guide will be discussed in more detail in the following units. To broaden your knowledge on research software development in general we do encourage you to read two other references namely the Turing way [2] and the Sustain 2021 report [3]. \n\n**To complete Unit 1, you are expected to:** \n\n - Read/watch the suggested [teaching material](http://localhost:3000/internal-training/modules/research-software/teaching_material) \n - Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach. \n - Please send the list of questions to your coach one day before the weekly meetings.. \n\nTime expected to complete this unit: **4 hours**\n"},{"_path":"/modules/research-software/introduction","_dir":"research-software","_draft":false,"_partial":false,"_locale":"","title":"Citing software","description":"","type":"reading","order":2,"body":{"type":"root","children":[{"type":"element","tag":"h2","props":{"id":"citing-software"},"children":[{"type":"text","value":"Citing software"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Software has become a crucial part of scientific research, yet it is not cited or credited as often and as easily as traditional research outputs. However, it is important to properly cite software, for many reasons, among which:"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Understanding Research Fields"}]},{"type":"text","value":": Software is a product of research, and by not citing it, we leave holes in the record of research of progress in those fields."}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Recognition"}]},{"type":"text","value":": Academic researchers at all levels, including students, postdocs, faculty, and staff, should be credited for the software products they develop and contribute to, particularly when those products enable or further research done by others. Non-academic researchers should also be credited for their software work, though the specific forms of credit are different than for academic researchers. Furthermore, citations can be tracked, which allows for more accurate assessment of the software's impact: who uses it, and what projects does it contribute to?"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Discovering Software"}]},{"type":"text","value":": Citations enable the specific software used in a research product to be found. Additional researchers can then use the same software for different purposes, leading to credit for those responsible for the software."}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Reproducibility"}]},{"type":"text","value":": Citation of specific software used is a crucial step in allowing other researchers to reproduce your results, although it is not sufficient. Additional information such as configurations and platform issues are also needed. Accurate information about the software — and its version! — used in your research is necessary for others to obtain and use the same software, making it easier to validate and build upon your research."}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"In this module, we will further illustrate the importance of software citation, and we will demonstrate how scientific software can be cited, and how to facilitate this as the author of scientific software. Here, you will be introduced to the file type "},{"type":"element","tag":"code","props":{"className":[]},"children":[{"type":"text","value":"CITATION.cff"}]},{"type":"text","value":", which was developed especially for this purpose.\n:::"}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"citing-software","depth":2,"text":"Citing software"}]}},"_type":"markdown","_id":"local_fs:modules:Research-software:introduction.md","_source":"local_fs","_file":"modules/Research-software/introduction.md","_extension":"md","plainText":"---\ntitle: Citing software\ntype: reading\norder: 2\n---\n\n## Citing software\n\nSoftware has become a crucial part of scientific research, yet it is not cited or credited as often and as easily as traditional research outputs. However, it is important to properly cite software, for many reasons, among which:\n\n**Understanding Research Fields**: Software is a product of research, and by not citing it, we leave holes in the record of research of progress in those fields.\n\n**Recognition**: Academic researchers at all levels, including students, postdocs, faculty, and staff, should be credited for the software products they develop and contribute to, particularly when those products enable or further research done by others. Non-academic researchers should also be credited for their software work, though the specific forms of credit are different than for academic researchers. Furthermore, citations can be tracked, which allows for more accurate assessment of the software's impact: who uses it, and what projects does it contribute to?\n\n**Discovering Software**: Citations enable the specific software used in a research product to be found. Additional researchers can then use the same software for different purposes, leading to credit for those responsible for the software.\n\n**Reproducibility**: Citation of specific software used is a crucial step in allowing other researchers to reproduce your results, although it is not sufficient. Additional information such as configurations and platform issues are also needed. Accurate information about the software — and its version! — used in your research is necessary for others to obtain and use the same software, making it easier to validate and build upon your research.\n\nIn this module, we will further illustrate the importance of software citation, and we will demonstrate how scientific software can be cited, and how to facilitate this as the author of scientific software. Here, you will be introduced to the file type `CITATION.cff`, which was developed especially for this purpose.\n:::"},{"_path":"/modules/research-software/slides-reasearch-software","_dir":"research-software","_draft":false,"_partial":false,"_locale":"","title":"Research Software","description":"===","type":"slides","order":3,"body":{"type":"root","children":[{"type":"element","tag":"h1","props":{"id":"research-software"},"children":[{"type":"text","value":"Research Software"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"h2","props":{"id":"what-is-research-software"},"children":[{"type":"text","value":"What is research software?"}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Writing research software involves a unique set of challenges and considerations."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Research software development is an iterative process, and adapting to emerging best practices and community standards is crucial for success."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Collaboration and open communication with colleagues and the research community are key to producing high-quality research software."}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Note:"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Here are some best practices to keep in mind when developing research software:"}]},{"type":"element","tag":"ol","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Plan and Design Carefully:"}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Start with a clear project plan and research goals."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Design your software architecture thoughtfully, with modularity and scalability in mind."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Document your software design, including data structures, algorithms, and dependencies."}]}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Version Control:"}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Use a version control system (e.g., Git) to track changes and collaborate with others."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Host your code on platforms like GitHub for easy collaboration and sharing."}]}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Reproducibility:"}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Make your code and research environment as reproducible as possible."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Document dependencies and provide setup instructions."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Consider containerization with tools like Docker to encapsulate the environment."}]}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Documentation:"}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Write clear and comprehensive documentation for your code."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Include comments in the code to explain complex logic or algorithms."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Use tools like Jupyter Notebooks for interactive documentation."}]}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Testing:"}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Implement unit tests, integration tests, and validation tests to ensure your software works correctly."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Use continuous integration (CI) to automate testing and catch errors early."}]}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Performance Optimization:"}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Optimize critical parts of your code for efficiency."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Use profiling tools to identify bottlenecks."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Consider parallelization or GPU acceleration for computationally intensive tasks."}]}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Data Management:"}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Implement data handling and storage best practices, including data cleaning and validation."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Use appropriate data structures and databases for efficient data management."}]}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Licensing:"}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Choose an open-source license that aligns with your project's goals (e.g., MIT, Apache, or GPL)."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Clearly specify the license in your project 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system"}]}]}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"https://softwarearchitecture.tools/#diagramming-tools","rel":["nofollow"]},"children":[{"type":"text","value":"https://softwarearchitecture.tools/#diagramming-tools"}]}]},{"type":"text","value":" \n"},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"h1","props":{"id":"software-engineering-best-practices"},"children":[{"type":"text","value":"Software engineering best practices"}]},{"type":"element","tag":"div","props":{"style":"width: 50%; float: left"},"children":[{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Modular and Scalable Design"}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Version control"}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Coding Standards (Readability/code formatting)"}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Test-Driven Development"}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Code Reviews"}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"continuous Integration (CI) and Continuous Delivery (CD)"}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Bug Tracking and Issue Management"}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Security Practices"}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Performance Optimization"}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"User Experience (UX) and Usability"}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Documentation"}]}]}]},{"type":"element","tag":"div","props":{"style":"width: 50%; float: 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development"}]},{"type":"element","tag":"div","props":{"style":"width: 50%; float: left"},"children":[{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"DevOps foster a culture of collaboration and continuous improvement\n"},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"practices, principles enhance collaboration and communication between software development and IT operations teams"}]}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"The primary objective is to\n"},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"increase the speed, quality, and reliability"}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Continuous integration (CI)"}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Monitoring and Feedback"}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Security"}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Microservices and containers"}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Scalability and Resilience"}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"DevOps toolchain"}]}]}]}]}]},{"type":"element","tag":"div","props":{"style":"width:50%; float: right"},"children":[{"type":"element","tag":"img","props":{"src":"/modules/Research-software/media/STEM-Research-software-writing18.png","width":"100%","style":{"aspectRatio":"1024/621"}},"children":[]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Note:"}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"DevOpsis not a one-size-fits-all approach, and its implementation can vary depending on an organization's specific needs and constraints.The primary objective is to increase the speed, quality, and reliability of software delivery"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"h2","props":{"id":"reusability-of-research-software"},"children":[{"type":"text","value":"Reusability of Research software"}]},{"type":"element","tag":"div","props":{"style":"width: 50%; float: left"},"children":[{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Does following SE best practices guarantee re-usability and user adoption?\n"},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"it should in increase adoption,"}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Beyond FAIR"}]}]}]}]}]},{"type":"element","tag":"div","props":{"style":"width:50%; float: 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potential\n"},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Tutorials/demos/papers"}]}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Dont forget to make the software repository public"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"h2","props":{"id":"takeaway"},"children":[{"type":"text","value":"Takeaway"}]},{"type":"element","tag":"div","props":{"style":"width: 50%; float: left"},"children":[{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Developing a software is\n"},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"a long and tedious process"}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"it worth to defend and sustaining but not at all costs"}]}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Suggestions:\n"},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Don’t fall in Love with your software When needed drop it and use another solution"}]}]}]}]}]},{"type":"element","tag":"div","props":{"style":"width:50%; float: right"},"children":[{"type":"element","tag":"img","props":{"src":"/modules/Research-software/media/STEM-Research-software-writing20.png","width":"100%","style":{"aspectRatio":"275/184"}},"children":[]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"http://www.esciencecenter.nl","rel":["nofollow"]},"children":[{"type":"text","value":"www.esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"mailto:info@esciencecenter.nl"},"children":[{"type":"text","value":"info@esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"020 - 460 47 70"}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"what-is-research-software","depth":2,"text":"What is research software?"},{"id":"research-software-lifecycle","depth":2,"text":"Research Software lifecycle"},{"id":"research-software-lifecycle-1","depth":2,"text":"Research Software lifecycle"},{"id":"research-software-in-all-scientific-disciplines","depth":2,"text":"Research software in all scientific disciplines"},{"id":"research-software-requirements","depth":2,"text":"Research software requirements"},{"id":"re-use-existing-open-source-software","depth":2,"text":"Re-use existing open-Source software"},{"id":"programming","depth":2,"text":"Programming"},{"id":"programming-languages","depth":2,"text":"Programming Languages"},{"id":"software-architecture","depth":2,"text":"Software Architecture"},{"id":"devopsteam-development","depth":2,"text":"DevOpsTeam development"},{"id":"reusability-of-research-software","depth":2,"text":"Reusability of Research software"},{"id":"takeaway","depth":2,"text":"Takeaway"}]}},"_type":"markdown","_id":"local_fs:modules:Research-software:slides-reasearch-software.md","_source":"local_fs","_file":"modules/Research-software/slides-reasearch-software.md","_extension":"md","plainText":"---\ntitle: Research Software \ntype: slides\norder: 3\n---\n\n\n\n# Research Software \n\n===\n\n\n\n## What is research software?\n \n- Writing research software involves a unique set of challenges and considerations. \n- Research software development is an iterative process, and adapting to emerging best practices and community standards is crucial for success. \n- Collaboration and open communication with colleagues and the research community are key to producing high-quality research software.\n\nNote: \n\nHere are some best practices to keep in mind when developing research software:\n1. **Plan and Design Carefully:**\n - Start with a clear project plan and research goals.\n - Design your software architecture thoughtfully, with modularity and scalability in mind.\n - Document your software design, including data structures, algorithms, and dependencies.\n\n2. **Version Control:**\n - Use a version control system (e.g., Git) to track changes and collaborate with others.\n - Host your code on platforms like GitHub for easy collaboration and sharing.\n\n3. **Reproducibility:**\n - Make your code and research environment as reproducible as possible.\n - Document dependencies and provide setup instructions.\n - Consider containerization with tools like Docker to encapsulate the environment.\n\n4. **Documentation:**\n - Write clear and comprehensive documentation for your code.\n - Include comments in the code to explain complex logic or algorithms.\n - Use tools like Jupyter Notebooks for interactive documentation.\n\n5. **Testing:**\n - Implement unit tests, integration tests, and validation tests to ensure your software works correctly.\n - Use continuous integration (CI) to automate testing and catch errors early.\n\n6. **Performance Optimization:**\n - Optimize critical parts of your code for efficiency.\n - Use profiling tools to identify bottlenecks.\n - Consider parallelization or GPU acceleration for computationally intensive tasks.\n\n7. **Data Management:**\n - Implement data handling and storage best practices, including data cleaning and validation.\n - Use appropriate data structures and databases for efficient data management.\n\n8. **Licensing:**\n - Choose an open-source license that aligns with your project's goals (e.g., MIT, Apache, or GPL).\n - Clearly specify the license in your project repository.\n\n9. **Collaboration:**\n - Foster a collaborative environment by welcoming contributions from others.\n - Use platforms like GitHub for issue tracking and pull requests.\n\n10. **Security:**\n - Protect sensitive data and prevent security vulnerabilities.\n - Keep libraries and dependencies up to date to address security issues.\n\n11. **User-Friendly Interfaces:**\n - Develop user-friendly interfaces and command-line options.\n - Consider creating graphical user interfaces (GUIs) for non-technical users.\n\n12. **Community Building:**\n - Engage with the research community, present your work, and seek feedback.\n - Consider publishing your code and datasets in repositories like Zenodo or Figshare.\n\n13. **Citation and DOI:**\n - Assign a DOI to your software, making it citable in research publications.\n - Encourage others to cite your work when they use your software.\n\n14. **Maintenance and Sustainability:**\n - Plan for long-term maintenance and updates.\n - Seek funding or support to ensure the sustainability of your research software.\n\n15. **Ethics and Compliance:**\n - Ensure your software complies with ethical guidelines and legal regulations, especially when dealing with sensitive data.\n\n16. **Peer Review:**\n - Consider submitting your software for peer review through platforms like the Journal of Open Source Software (JOSS).\n\n===\n\n\n\n## Research Software lifecycle \n\n| steps | Authors |\n| :-- | :-- |\n| 1. Conducting Research | Individual / team |\n| **Design phase:** **(2)** Software architecture **(3)** Check open source | Individual / team |\n| **Coding phase:** **(4)** Choose a language **(5)** Separation of Concern (Modularity) **(6)** Apply software patterns | Individual / team |\n| **Testing Phase:** **(7)** Unit testing / Integration / Performance / Security | Individual / team |\n| **Documentation:** **(8)** User documentation/ developer / Tutorials / publication | Individual / team |\n| **Distribution:** **(9)** Choose a licence **(11.** publication **(12)** make you software public | Individual / team |\n\n===\n\n\n\n## Research Software lifecycle \n\n\n
\n\n
\n\n===\n\n\n\n## Research software in all scientific disciplines\n \n
\n\n
\n\n===\n\n\n\n## Research software requirements\n \n
\n\n
\n\n===\n\n\n\n## Re-use existing open-Source software\n\n
\n\n- Available for free*\n- Maintained by volunteers\n- Documentation not always up to date\n\n
\n\n
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\nPhoto by xxxx on xxxx\n
\n \n\nNote: \n\nHow-to\n - **How:** Search engines: searchcode.com\" or \"searchcode.com\n - **Where:** Platforms and directories for open-source software, such as GitHub, GitLab, SourceForge, and Bitbucket\n - **Easy Install**: Package Mangers: make it easy to find and install open-source libraries: pip (Python), npm(Node.js), and RubyGems,(Ruby) …\n - **Under a License**: Apache, MIT, GPL, LGPL, BCD CC*\n - A software license is a legal agreement that define the terms and conditions under which software can be used, distributed, modified, and shared\n\n\nThese licenses serve to protect the rights of the software developer while also defining what users are allowed to do with the software. \nHere are some key components typically found in software licenses:\n\n1. **License Grant:** This section describes what the software license allows users to do. It may specify whether the software can be used, copied, modified, or distributed.\n\n2. **Restrictions:** These are limitations placed on the user, such as restrictions on reverse engineering, decompiling, or using the software for specific purposes.\n\n3. **Usage Terms:** This section may include usage terms, such as the number of users or devices that can use the software, the duration of the license, and whether the license is transferable.\n\n4. **Distribution:** If the software can be distributed, the license may specify the conditions under which it can be shared or sold.\n\n5. **Modification:** If users are allowed to modify the software, the license might specify the terms for sharing those modifications, including whether they must be open source or can remain proprietary.\n\n6. **Attribution:** Some licenses require users to provide attribution to the original software developer in their own work.\n\n7. **Warranty and Liability:** This section outlines the warranty, if any, provided with the software. It may also specify the extent of liability of the software developer for any damages or issues arising from the software's use.\n\n8. **Termination:** The license may include conditions under which it can be terminated, such as non-compliance with the license terms.\n\n9. **Governing Law:** This indicates which jurisdiction's laws will govern the license agreement.\n\nCommon types of software licenses include open source licenses like the MIT License, Apache License, and GNU General Public License (GPL), as well as proprietary licenses used for commercial software. Each type of license comes with its own set of terms and conditions, ranging from highly permissive (e.g., MIT License) to more restrictive (e.g., some proprietary licenses).\n\nIt's essential to carefully read and understand the terms of a software license before using or distributing the software, as violation of the license terms can have legal consequences. Additionally, some licenses are not compatible with one another, so it's crucial to ensure that the software's licenses align with your intended use and distribution.\n\n\n===\n\n\n\n## Programming \n\n\n There are several programming paradigms, which are different approaches to writing code and structuring programs\n\n
\n\n- Procedural Programming\n - Object-Oriented Programming \n - Functional Programming \n - Declarative Programming\n - Logic Programming\n - Concurrent and Parallel Programming\n - Event-Driven Programming\n
\n\n
\n\n
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\nPhoto by xxxx on xxxx\n
\n\nNote: \n\n- Don’t get into religious programming discussion and attitude.\n- Choose based on what fits best\n - Expressiveness\n - Ease of use\n - Eco-systems (libraries, tools for debugging, community)\n- Imperative Programming: In imperative programming, you provide explicit instructions for the computer to follow, specifying the sequence of steps to achieve a particular result. Languages like C, C++, and Pascal are often associated with this paradigm.\n- Procedural Programming: Procedural programming is a subset of imperative programming where code is organized into procedures or functions. It promotes code reusability and maintainability. C and Pascal are examples of languages that support procedural programming.\n- Object-Oriented Programming (OOP): In OOP, programs are structured around objects, which encapsulate data and behavior. Key concepts include classes, inheritance, and polymorphism. Java, C++, and Python are popular OOP languages.\n- Functional Programming (FP): Functional programming treats computation as the evaluation of mathematical functions and avoids changing state and mutable data. It relies heavily on functions as first-class citizens. Languages like Haskell, Lisp, and Erlang are associated with this paradigm.\n- Declarative Programming: In declarative programming, you specify what you want to achieve without detailing how it should be done. SQL, for example, is a declarative language used for querying databases.\n- Logic Programming: Logic programming is based on formal logic and rule-based systems. Prolog is a well-known logic programming language used for symbolic reasoning and knowledge representation.\n- Event-Driven Programming: This paradigm is common in GUI programming and systems where code responds to events or messages. Event-driven languages include JavaScript and Python (with libraries like Tkinter).\nAspect-Oriented Programming (AOP): AOP is a complement to OOP. It focuses on separating cross-cutting concerns (e.g., logging, security) from the main program logic. AspectJ is a popular AOP extension for Java.\n- Concurrent and Parallel Programming: These paradigms address multi-threading, parallel processing, and synchronization. Languages like Go, Erlang, and Java provide features for concurrent and parallel programming.\n- Meta-Programming: Meta-programming is a programming technique where code generates, modifies, or analyzes other code. It's often used in code generation and domain-specific languages.\n- Scripting: Scripting languages are designed for quick, dynamic, and interpreted scripting tasks. Python, Ruby, and - JavaScript are scripting languages commonly used for automation and web development.\n- Array Programming: Array programming emphasizes operations on entire arrays rather than individual elements. Languages like MATLAB and NumPy (Python library) support array programming.\n- Reactive Programming\n\n===\n\n\n\n\n## Programming Languages\n\n\n\n
\n\nDon’t get into religious programming discussion and attitude\\.\n- Choose based on what fits best\n - Expressiveness\n - Ease of use\n - Eco-systems (libraries, tools for debugging, community)\n\n
\n\n
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\n\nNote: \n\n[https://en.wikipedia.org/wiki/Comparison_of_multi-paradigm_programming_languages](https://en.wikipedia.org/wiki/Comparison_of_multi-paradigm_programming_languages) \n\n===\n\n\n\n## Software Architecture\n\n
\n\nDesign\n- Functional vs Non-functional requirements\n- Architecture style\n- Component design\n- Software patterns\n- Scalability\n- Security Performance\n- Deployment and hosting\n- Monitoring and logging\n- Compliance and standards\n- Change management\n- Review and validation\n
\n\n
\n\n
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\n\nNote:\n - Use appropriate Tools:\n - provide features for creating architectural diagrams, defining components, and visualizing the structure of a software system\n\n[https://softwarearchitecture.tools/#diagramming-tools](https://softwarearchitecture.tools/#diagramming-tools)\n\n \n\n===\n\n\n\n# Software engineering best practices\n\n\n
\n\n- Modular and Scalable Design\n- Version control\n- Coding Standards (Readability/code formatting)\n- Test-Driven Development\n- Code Reviews\n- continuous Integration (CI) and Continuous Delivery (CD)\n- Bug Tracking and Issue Management\n- Security Practices\n- Performance Optimization\n- User Experience (UX) and Usability\n- Documentation\n
\n\n
\n\n
\n\n\nNote:\n\nUse of Integrated Development Environment (IDE)\n\nhttps://sourceforge\\.net/directory/integrated\\-development\\-environments\\-ide/mac/\n\n===\n\n\n\n## DevOpsTeam development\n\n
\n\n- DevOps foster a culture of collaboration and continuous improvement\n - practices, principles enhance collaboration and communication between software development and IT operations teams\n- The primary objective is to\n - increase the speed, quality, and reliability\n - Continuous integration (CI)\n - Monitoring and Feedback\n - Security\n - Microservices and containers\n - Scalability and Resilience\n - DevOps toolchain\n
\n
\n\n
\n\nNote:\n\n- DevOpsis not a one-size-fits-all approach, and its implementation can vary depending on an organization's specific needs and constraints.The primary objective is to increase the speed, quality, and reliability of software delivery\n\n===\n\n\n\n## Reusability of Research software\n\n\n
\n\n- Does following SE best practices guarantee re-usability and user adoption?\n - it should in increase adoption,\n - Beyond FAIR\n
\n
\n\n
\n\n\nNote:\n\n- Identify\n - the competition\n - the Unique seling point\n- Reach out potential\n - Tutorials/demos/papers\n- Dont forget to make the software repository public\n\n===\n\n\n\n## Takeaway\n\n
\n\n- Developing a software is\n - a long and tedious process\n - it worth to defend and sustaining but not at all costs\n- Suggestions: \n - Don’t fall in Love with your software When needed drop it and use another solution\n
\n
\n\n
\n\n===\n\n\n\nwww.esciencecenter.nl\n\ninfo@esciencecenter.nl\n \n020 - 460 47 70 \n"},{"_path":"/modules/research-software/teaching_material","_dir":"research-software","_draft":false,"_partial":false,"_locale":"","title":"Teaching Material","description":"","type":"exercise","order":3,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"teaching-material"},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Teaching Material"}]}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Netherlands eScience Center Guide "},{"type":"element","tag":"a","props":{"href":"https://guide.esciencecenter.nl/#/","rel":["nofollow"]},"children":[{"type":"text","value":"eScience Center Guide"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"The Turing way – Chapters: reproducible research and project design "},{"type":"element","tag":"a","props":{"href":"https://the-turing-way.netlify.app/welcome.html","rel":["nofollow"]},"children":[{"type":"text","value":"online Book"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Sustain 2021 "},{"type":"element","tag":"a","props":{"href":"https://sustainoss.org/assets/pdf/Sustain-In-2021-Event-Report.pdf","rel":["nofollow"]},"children":[{"type":"text","value":"Report 2021"}]}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"teaching-material","depth":3,"text":"Teaching Material"}]}},"_type":"markdown","_id":"local_fs:modules:Research-software:teaching_material.md","_source":"local_fs","_file":"modules/Research-software/teaching_material.md","_extension":"md","plainText":"---\ntitle: Teaching Material \ntype: exercise\norder: 3\n---\n\n### **Teaching Material**\n\n- Netherlands eScience Center Guide [eScience Center Guide](https://guide.esciencecenter.nl/#/)\n- The Turing way – Chapters: reproducible research and project design [online Book](https://the-turing-way.netlify.app/welcome.html)\n- Sustain 2021 [Report 2021](https://sustainoss.org/assets/pdf/Sustain-In-2021-Event-Report.pdf)\n\n\n"},{"_path":"/modules/software-archtecture-design/context","_dir":"software-archtecture-design","_draft":false,"_partial":false,"_locale":"","title":"Background unit 4","description":"","type":"reading","order":1,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"background"},"children":[{"type":"text","value":"Background"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"As the size of software systems increases, the algorithms and data structures introduced in Unit 4 are no longer the major design problems. When systems are constructed from many components, the organization of the overall system—the software architecture—is the new design challenge. Software architecture design has been addressed in several ways including informal diagrams and descriptive terms, module interconnection languages, templates and frameworks for systems that serve the needs of specific domains, and formal models of component integration mechanisms."}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"background","depth":3,"text":"Background"}]}},"_type":"markdown","_id":"local_fs:modules:Software-archtecture-design:context.md","_source":"local_fs","_file":"modules/Software-archtecture-design/context.md","_extension":"md","plainText":"---\ntitle: Background unit 4 \ntype: reading\norder: 1 \n---\n\n### Background \nAs the size of software systems increases, the algorithms and data structures introduced in Unit 4 are no longer the major design problems. When systems are constructed from many components, the organization of the overall system—the software architecture—is the new design challenge. Software architecture design has been addressed in several ways including informal diagrams and descriptive terms, module interconnection languages, templates and frameworks for systems that serve the needs of specific domains, and formal models of component integration mechanisms.\n"},{"_path":"/modules/software-archtecture-design/further_reading","_dir":"software-archtecture-design","_draft":false,"_partial":false,"_locale":"","title":"Further Reading","description":"","type":"reading","order":6,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"further-reading"},"children":[{"type":"text","value":"Further Reading"}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"further-reading","depth":3,"text":"Further Reading"}]}},"_type":"markdown","_id":"local_fs:modules:Software-archtecture-design:further_reading.md","_source":"local_fs","_file":"modules/Software-archtecture-design/further_reading.md","_extension":"md","plainText":"---\ntitle: Further Reading \ntype: reading\norder: 6\n---\n\n### Further Reading\n"},{"_path":"/modules/software-archtecture-design","_dir":"modules","_draft":false,"_partial":false,"_locale":"","title":"Software architecture design","description":"Photo by TODO on Unsplash","category":"Module1","order":4,"author":"eScience Center","abstract":null,"thumbnail":"software-architecture.jpeg","visibility":"visible","body":{"type":"root","children":[{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Photo by "},{"type":"element","tag":"a","props":{"href":""},"children":[{"type":"text","value":"TODO"}]},{"type":"text","value":" on "},{"type":"element","tag":"a","props":{"href":"https://csharp-station.com/Tutorial/CSharp/Lesson19"},"children":[{"type":"text","value":"Unsplash"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:Software-archtecture-design:index.md","_source":"local_fs","_file":"modules/Software-archtecture-design/index.md","_extension":"md","plainText":"---\ntitle: Software architecture design\ncategory: Module1\norder: 4 \nauthor: eScience Center\nabstract: \nthumbnail: \"software-architecture.jpeg\"\nvisibility: visible\n---\n\n\nPhoto by TODO on Unsplash\n \n \n"},{"_path":"/modules/software-archtecture-design/info","_dir":"software-archtecture-design","_draft":false,"_partial":false,"_locale":"","title":"Learning objectives","description":"after completing unit 4 you will have acquired a basic understanding of the various data structures and will be able to make an informed decision about the data structure you will be using in your projects.","type":"info","order":0,"body":{"type":"root","children":[{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"after completing unit 4 you will have acquired a basic understanding of the various data structures and will be able to make an informed decision about the data structure you will be using in your projects."}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Understand the Role of Software Architecture in System Design: Learners will be able to explain the importance of software architecture in designing large-scale systems."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Identify and Compare Software Architecture Approaches: Learners will be able to describe and differentiate between various methods of software architecture design"}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Apply Architectural Principles to Component-Based Systems: Learners will be able to refelct on high-level architecture for a system composed of multiple components"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:Software-archtecture-design:info.md","_source":"local_fs","_file":"modules/Software-archtecture-design/info.md","_extension":"md","plainText":"---\ntitle: Learning objectives\ntype: info\norder: 0\n---\nafter completing unit 4 you will have acquired a basic understanding of the various data structures and will be able to make an informed decision about the data structure you will be using in your projects.\n\n- Understand the Role of Software Architecture in System Design: Learners will be able to explain the importance of software architecture in designing large-scale systems.\n\n- Identify and Compare Software Architecture Approaches: Learners will be able to describe and differentiate between various methods of software architecture design\n\n- Apply Architectural Principles to Component-Based Systems: Learners will be able to refelct on high-level architecture for a system composed of multiple components\n"},{"_path":"/modules/software-archtecture-design/instructions","_dir":"software-archtecture-design","_draft":false,"_partial":false,"_locale":"","title":"Unit 4 Instructions","description":"","type":"reading","order":2,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"instructions"},"children":[{"type":"text","value":"Instructions"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"For Unit 4, we selected three references which will help you to acquire a basic understanding of both Data structures and Algorithms. "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"1"}]},{"type":"text","value":" is a 5-hour course given by teamtreehouse.com and contains lectures and hands-on sessions. This will be the main material to study for unit 4."}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"We provide extra references for those who like to read more in-depth material on the topic of Unit 3."}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"To complete Unit 4, you are expected to:"}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Watch the suggested teaching material."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Prepare a list of questions and a short reflection on the suggested material. 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This will be the main material to study for unit 4. \n\nWe provide extra references for those who like to read more in-depth material on the topic of Unit 3. \n\nTo complete Unit 4, you are expected to: \n\n - Watch the suggested teaching material. \n\n - Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach. \n\n - Please send the list of questions to your coach one day before. \n\nImportant: In this unit the proposed material [1] contains some hands-on assignments. It is crucial to pause the video and perform the hands-on work on your laptop. \nTime expected to complete this unit: **4 hours**\n"},{"_path":"/modules/software-archtecture-design/slides-software-archtecture-design","_dir":"software-archtecture-design","_draft":false,"_partial":false,"_locale":"","title":"Software Architecture Design","description":"===","type":"slides","order":3,"body":{"type":"root","children":[{"type":"element","tag":"h1","props":{"id":"software-architecture-design"},"children":[{"type":"text","value":"Software Architecture Design"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"h2","props":{"id":"software-architecture-design"},"children":[{"type":"text","value":"Software Architecture Design "},{"type":"element","tag":"todo","props":{},"children":[]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"http://www.esciencecenter.nl","rel":["nofollow"]},"children":[{"type":"text","value":"www.esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"mailto:info@esciencecenter.nl"},"children":[{"type":"text","value":"info@esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"020 - 460 47 70"}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"software-architecture-design","depth":2,"text":"Software Architecture Design "}]}},"_type":"markdown","_id":"local_fs:modules:Software-archtecture-design:slides-Software-archtecture-design.md","_source":"local_fs","_file":"modules/Software-archtecture-design/slides-Software-archtecture-design.md","_extension":"md","plainText":"---\ntitle: Software Architecture Design \ntype: slides\norder: 3\n---\n\n\n\n# Software Architecture Design\n\n===\n\n\n\n## Software Architecture Design \n \n\n===\n\n\n\nwww.esciencecenter.nl\n\ninfo@esciencecenter.nl\n \n020 - 460 47 70 \n"},{"_path":"/modules/software-archtecture-design/teaching_material","_dir":"software-archtecture-design","_draft":false,"_partial":false,"_locale":"","title":"Teaching Material","description":"","type":"exercise","order":5,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"teaching-material"},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Teaching Material"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Data structure, Algorithms, sorting & searching, "},{"type":"element","tag":"a","props":{"href":""},"children":[{"type":"text","value":"freeCodeCamp.org"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"teaching-material","depth":3,"text":"Teaching Material"}]}},"_type":"markdown","_id":"local_fs:modules:Software-archtecture-design:teaching_material.md","_source":"local_fs","_file":"modules/Software-archtecture-design/teaching_material.md","_extension":"md","plainText":"---\ntitle: Teaching Material \ntype: exercise\norder: 5\n---\n\n### **Teaching Material**\n\nData structure, Algorithms, sorting & searching, [freeCodeCamp.org]()\n"},{"_path":"/modules/software-testing/context","_dir":"software-testing","_draft":false,"_partial":false,"_locale":"","title":"Background unit 2","description":"","type":"reading","order":1,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"background"},"children":[{"type":"text","value":"Background"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Software testing is a method of determining whether the actual software product meets the expected requirements and ensuring that the software product is free of defects. It entails running software/system components through their pace using manual or automated tools to evaluate one or more properties of interest like security"}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"background","depth":3,"text":"Background"}]}},"_type":"markdown","_id":"local_fs:modules:Software-testing:context.md","_source":"local_fs","_file":"modules/Software-testing/context.md","_extension":"md","plainText":"---\ntitle: Background unit 2 \ntype: reading\norder: 1\n---\n\n### Background \nSoftware testing is a method of determining whether the actual software product meets the expected requirements and ensuring that the software product is free of defects. It entails running software/system components through their pace using manual or automated tools to evaluate one or more properties of interest like security\n"},{"_path":"/modules/software-testing/further_reading","_dir":"software-testing","_draft":false,"_partial":false,"_locale":"","title":"Further Reading","description":"","type":"reading","order":5,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"further-reading"},"children":[{"type":"text","value":"Further Reading"}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"further-reading","depth":3,"text":"Further Reading"}]}},"_type":"markdown","_id":"local_fs:modules:Software-testing:further_reading.md","_source":"local_fs","_file":"modules/Software-testing/further_reading.md","_extension":"md","plainText":"---\ntitle: Further Reading \ntype: reading\norder: 5\n---\n\n### Further Reading\n\n"},{"_path":"/modules/software-testing","_dir":"modules","_draft":false,"_partial":false,"_locale":"","title":"Software testing","description":"Photo by TODO on Unsplash","category":"Module2","order":2,"author":"eScience Center","abstract":null,"thumbnail":"software-testing1.jpg","visibility":"visible","body":{"type":"root","children":[{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Photo by "},{"type":"element","tag":"a","props":{"href":""},"children":[{"type":"text","value":"TODO"}]},{"type":"text","value":" on "},{"type":"element","tag":"a","props":{"href":"https://csharp-station.com/Tutorial/CSharp/Lesson19"},"children":[{"type":"text","value":"Unsplash"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:Software-testing:index.md","_source":"local_fs","_file":"modules/Software-testing/index.md","_extension":"md","plainText":"---\ntitle: Software testing\ncategory: Module2\norder: 2 \nauthor: eScience Center\nabstract: \nthumbnail: \"software-testing1.jpg\"\nvisibility: visible\n---\n\n\nPhoto by TODO on Unsplash\n \n \n"},{"_path":"/modules/software-testing/info","_dir":"software-testing","_draft":false,"_partial":false,"_locale":"","title":"Learning objectives","description":"","type":"info","order":0,"body":{"type":"root","children":[{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Understand the Role of Software Testing in Development: Learners will be able to explain the importance of software testing in enhancing productivity and improving code quality."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Apply Foundational Testing Practices in Research Projects: Learners will be able to implement basic testing techniques safely and effectively in their research projects."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Appreciate the Professional Perspective on Software Testing: Learners will be able to reflect on the broader scope and significance of software testing as a professional discipline."}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[]}},"_type":"markdown","_id":"local_fs:modules:Software-testing:info.md","_source":"local_fs","_file":"modules/Software-testing/info.md","_extension":"md","plainText":"---\ntitle: Learning objectives\ntype: info\norder: 0\n---\n\n- Understand the Role of Software Testing in Development: Learners will be able to explain the importance of software testing in enhancing productivity and improving code quality.\n\n- Apply Foundational Testing Practices in Research Projects: Learners will be able to implement basic testing techniques safely and effectively in their research projects.\n\n- Appreciate the Professional Perspective on Software Testing: Learners will be able to reflect on the broader scope and significance of software testing as a professional discipline.\n"},{"_path":"/modules/software-testing/instructions","_dir":"software-testing","_draft":false,"_partial":false,"_locale":"","title":"Unit 2 Instructions","description":"","type":"reading","order":2,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"instructions"},"children":[{"type":"text","value":"Instructions"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"For Unit 2, we selected a couple of references which will help to motivate you to see the importance of software testing and its impact on your productivity and code quality. "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"1"}]},{"type":"text","value":" Effective unit testing by Elliotte Rusty is a keynote at Devoxx 2017 and focuses on the “why” aspects of testing, it is more on how you improve the development process by testing. "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"2"}]},{"type":"text","value":" points to the Testing Chapter of the Turing way which convers enough details on the topic to let you start with safely with testing in your research projects. Finally, "},{"type":"element","tag":"span","props":{},"children":[{"type":"text","value":"3"}]},{"type":"text","value":" is Open Lecture by James Bach on software testing which is more provocative, and approach testing from practical point of view, it tells the story from the professional testers point of view, it highlights that software testing is not just a matter of writing a few unit tests but it is a profession it itself is, never thought of that way before listening to this talk might be beyond the scope of this unit."}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"To complete Unit 2, you are expected to:"}]}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Read/watch the suggested "},{"type":"element","tag":"a","props":{"href":"http://localhost:3000/internal-training/modules/Software-testing/teaching_material","rel":["nofollow"]},"children":[{"type":"text","value":"teaching material"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Please send the list of questions to your coach one day before the weekly meetings.."}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Time expected to complete this unit: "},{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"4 hours"}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"instructions","depth":3,"text":"Instructions"}]}},"_type":"markdown","_id":"local_fs:modules:Software-testing:instructions.md","_source":"local_fs","_file":"modules/Software-testing/instructions.md","_extension":"md","plainText":"---\ntitle: Unit 2 Instructions \ntype: reading\norder: 2\n---\n\n### Instructions \n\nFor Unit 2, we selected a couple of references which will help to motivate you to see the importance of software testing and its impact on your productivity and code quality. [1] Effective unit testing by Elliotte Rusty is a keynote at Devoxx 2017 and focuses on the “why” aspects of testing, it is more on how you improve the development process by testing. [2] points to the Testing Chapter of the Turing way which convers enough details on the topic to let you start with safely with testing in your research projects. Finally, [3] is Open Lecture by James Bach on software testing which is more provocative, and approach testing from practical point of view, it tells the story from the professional testers point of view, it highlights that software testing is not just a matter of writing a few unit tests but it is a profession it itself is, never thought of that way before listening to this talk might be beyond the scope of this unit. \n\n \n**To complete Unit 2, you are expected to:** \n\n - Read/watch the suggested [teaching material](http://localhost:3000/internal-training/modules/Software-testing/teaching_material) \n - Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach. \n - Please send the list of questions to your coach one day before the weekly meetings.. \n\nTime expected to complete this unit: **4 hours**\n"},{"_path":"/modules/software-testing/slides-software-testing","_dir":"software-testing","_draft":false,"_partial":false,"_locale":"","title":"Software-testing","description":"===","type":"slides","order":3,"body":{"type":"root","children":[{"type":"element","tag":"h1","props":{"id":"software-testing"},"children":[{"type":"text","value":"Software-testing"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"h2","props":{"id":"software-testing"},"children":[{"type":"text","value":"Software-testing "},{"type":"element","tag":"todo","props":{},"children":[]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"==="}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"http://www.esciencecenter.nl","rel":["nofollow"]},"children":[{"type":"text","value":"www.esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"element","tag":"a","props":{"href":"mailto:info@esciencecenter.nl"},"children":[{"type":"text","value":"info@esciencecenter.nl"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"020 - 460 47 70"}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"software-testing","depth":2,"text":"Software-testing "}]}},"_type":"markdown","_id":"local_fs:modules:Software-testing:slides-software-testing.md","_source":"local_fs","_file":"modules/Software-testing/slides-software-testing.md","_extension":"md","plainText":"---\ntitle: Software-testing \ntype: slides\norder: 3\n---\n\n\n\n# Software-testing\n\n===\n\n\n\n## Software-testing \n \n\n===\n\n\n\nwww.esciencecenter.nl\n\ninfo@esciencecenter.nl\n \n020 - 460 47 70 \n"},{"_path":"/modules/software-testing/teaching_material","_dir":"software-testing","_draft":false,"_partial":false,"_locale":"","title":"Teaching Material","description":"","type":"exercise","order":3,"body":{"type":"root","children":[{"type":"element","tag":"h3","props":{"id":"teaching-material"},"children":[{"type":"element","tag":"strong","props":{},"children":[{"type":"text","value":"Teaching Material"}]}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Effective unit testing by Elliotte Rusty "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=fr1E9aVnBxw","rel":["nofollow"]},"children":[{"type":"text","value":"keyTalk@Devoxx2017"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Open Lecture by James Bach on Software Testing "},{"type":"element","tag":"a","props":{"href":"https://www.youtube.com/watch?v=ILkT_HV9DVU","rel":["nofollow"]},"children":[{"type":"text","value":"online Lecture"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"The Turing way: Testing chapter"},{"type":"element","tag":"a","props":{"href":"https://the-turing-way.netlify.app/reproducible-research/testing.html","rel":["nofollow"]},"children":[{"type":"text","value":"Online book"}]}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"teaching-material","depth":3,"text":"Teaching Material"}]}},"_type":"markdown","_id":"local_fs:modules:Software-testing:teaching_material.md","_source":"local_fs","_file":"modules/Software-testing/teaching_material.md","_extension":"md","plainText":"---\ntitle: Teaching Material \ntype: exercise\norder: 3\n---\n\n### **Teaching Material**\n\n- Effective unit testing by Elliotte Rusty [keyTalk@Devoxx2017](https://www.youtube.com/watch?v=fr1E9aVnBxw)\n- Open Lecture by James Bach on Software Testing [online Lecture](https://www.youtube.com/watch?v=ILkT_HV9DVU)\n- The Turing way: Testing chapter[Online book](https://the-turing-way.netlify.app/reproducible-research/testing.html)\n"},{"_path":"/package-lock","_dir":"","_draft":false,"_partial":false,"_locale":"","name":"internal-training","lockfileVersion":3,"requires":true,"packages":{},"_id":"local_fs:package-lock.json","_type":"json","title":"Package Lock","_source":"local_fs","_file":"package-lock.json","_extension":"json"},{"_path":"/readme","_dir":"","_draft":false,"_partial":false,"_locale":"","title":"NEBULA-content-template","description":"This template repository can be used to create an easily maintainable, version-controllable, web-based lesson collection to be deployed with the NEBULA framework.","body":{"type":"root","children":[{"type":"element","tag":"h1","props":{"id":"nebula-content-template"},"children":[{"type":"text","value":"NEBULA-content-template"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"This template repository can be used to create an easily maintainable, version-controllable, web-based lesson collection to be deployed with the "},{"type":"element","tag":"a","props":{"href":"https://github.com/esciencecenter-digital-skills/NEBULA","rel":["nofollow"]},"children":[{"type":"text","value":"NEBULA framework"}]},{"type":"text","value":"."}]},{"type":"element","tag":"h2","props":{"id":"repo-instantiation"},"children":[{"type":"text","value":"Repo instantiation"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"To create a custom-made lesson repository, click the "},{"type":"element","tag":"code","props":{"className":[]},"children":[{"type":"text","value":"Use this template"}]},{"type":"text","value":" button located at the top right of this page."}]},{"type":"element","tag":"h2","props":{"id":"configure-github-pages"},"children":[{"type":"text","value":"Configure GitHub Pages"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"After instantiation, you need to set up your repo's GitHub Pages. Follow these steps:"}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Go to "},{"type":"element","tag":"code","props":{"className":[]},"children":[{"type":"text","value":"Settings"}]},{"type":"text","value":" (located on the top toolbar), and then click on "},{"type":"element","tag":"code","props":{"className":[]},"children":[{"type":"text","value":"Pages"}]},{"type":"text","value":"."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Under the "},{"type":"element","tag":"code","props":{"className":[]},"children":[{"type":"text","value":"Branch"}]},{"type":"text","value":" option, select the "},{"type":"element","tag":"code","props":{"className":[]},"children":[{"type":"text","value":"gh-pages"}]},{"type":"text","value":" branch and then click "},{"type":"element","tag":"code","props":{"className":[]},"children":[{"type":"text","value":"Save"}]},{"type":"text","value":". Use the "},{"type":"element","tag":"code","props":{"className":[]},"children":[{"type":"text","value":"/root"}]},{"type":"text","value":" folder as the default."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Return to your main repository page."}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"In the "},{"type":"element","tag":"code","props":{"className":[]},"children":[{"type":"text","value":"About"}]},{"type":"text","value":" section of your repository details, find the "},{"type":"element","tag":"code","props":{"className":[]},"children":[{"type":"text","value":"Website"}]},{"type":"text","value":" field and select "},{"type":"element","tag":"code","props":{"className":[]},"children":[{"type":"text","value":"Use your GitHub Pages website"}]},{"type":"text","value":"."}]}]},{"type":"element","tag":"h2","props":{"id":"add-the-title-of-your-lesson-and-additional-sections"},"children":[{"type":"text","value":"Add the title of your lesson and additional sections"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"This can be configured through the "},{"type":"element","tag":"code","props":{"className":[]},"children":[{"type":"text","value":"config.json"}]},{"type":"text","value":" file. Below is an example of its contents:"}]},{"type":"element","tag":"pre","props":{"code":"{\n \"publicProps\": {\n \"title\": \"Add a title for your lesson/project\",\n \"baseURL\": \"NEBULA-content-template\",\n \"repoName\": \"NEBULA-content-template\",\n \"repoOwner\": \"esciencecenter-digital-skills\",\n \"organization\": \"Netherlands eScience Center\",\n \"categoryOrder\": [\"Category1\", \"Category2\"]\n }\n}\n"},"children":[{"type":"element","tag":"code","props":{"__ignoreMap":""},"children":[{"type":"text","value":"{\n \"publicProps\": {\n \"title\": \"Add a title for your lesson/project\",\n \"baseURL\": \"NEBULA-content-template\",\n \"repoName\": \"NEBULA-content-template\",\n \"repoOwner\": \"esciencecenter-digital-skills\",\n \"organization\": \"Netherlands eScience Center\",\n \"categoryOrder\": [\"Category1\", \"Category2\"]\n }\n}\n"}]}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"You can modify the "},{"type":"element","tag":"code","props":{"className":[]},"children":[{"type":"text","value":"\"title\""}]},{"type":"text","value":" field to reflect your specific topic and add new sections to your lesson under "},{"type":"element","tag":"code","props":{"className":[]},"children":[{"type":"text","value":"\"categoryOrder\""}]},{"type":"text","value":"."}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"The "},{"type":"element","tag":"code","props":{"className":[]},"children":[{"type":"text","value":"\"repoName\""}]},{"type":"text","value":" and "},{"type":"element","tag":"code","props":{"className":[]},"children":[{"type":"text","value":"\"baseURL\""}]},{"type":"text","value":" fields are automatically updated to the name of your new repository using the "},{"type":"element","tag":"a","props":{"href":"https://github.com/esciencecenter-digital-skills/NEBULA-content-template/blob/main/.github/workflows/generate_config.yml","rel":["nofollow"]},"children":[{"type":"text","value":"generate_config.yml"}]},{"type":"text","value":" file. The corresponding workflow is triggered only once upon repository instantiation and is subsequently disabled."}]},{"type":"element","tag":"h2","props":{"id":"adding-new-modules"},"children":[{"type":"text","value":"Adding new modules"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"This repository includes dummy model modules as templates that you can follow to create your own modules. Please, follow the recommended formats and file extensions.\nSee also "},{"type":"element","tag":"a","props":{"href":"https://github.com/esciencecenter-digital-skills/NEBULA-docs","rel":["nofollow"]},"children":[{"type":"text","value":"NEBULA-docs"}]},{"type":"text","value":" for information on how to create new modules."}]},{"type":"element","tag":"h2","props":{"id":"suggestions-and-further-info"},"children":[{"type":"text","value":"Suggestions and further info"}]},{"type":"element","tag":"p","props":{},"children":[{"type":"text","value":"Suggestions are always welcome.\nFor this and any other issues, we invite you contribute to the project by creating "},{"type":"element","tag":"code","props":{"className":[]},"children":[{"type":"text","value":"Issues"}]},{"type":"text","value":" and "},{"type":"element","tag":"code","props":{"className":[]},"children":[{"type":"text","value":"Pull requests"}]},{"type":"text","value":".\nIf needed, you can also contact us directly:"}]},{"type":"element","tag":"ul","props":{},"children":[{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Carlos M. R. Rocha: "},{"type":"element","tag":"a","props":{"href":"mailto:c.rocha@esciencecenter.nl"},"children":[{"type":"text","value":"c.rocha@esciencecenter.nl"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Jaro Camphuijsen: "},{"type":"element","tag":"a","props":{"href":"mailto:j.camphuijsen@esciencecenter.nl"},"children":[{"type":"text","value":"j.camphuijsen@esciencecenter.nl"}]}]},{"type":"element","tag":"li","props":{},"children":[{"type":"text","value":"Robin Richardson: "},{"type":"element","tag":"a","props":{"href":"mailto:r.richardson@esciencecenter.nl"},"children":[{"type":"text","value":"r.richardson@esciencecenter.nl"}]}]}]}],"toc":{"title":"","searchDepth":2,"depth":2,"links":[{"id":"repo-instantiation","depth":2,"text":"Repo instantiation"},{"id":"configure-github-pages","depth":2,"text":"Configure GitHub Pages"},{"id":"add-the-title-of-your-lesson-and-additional-sections","depth":2,"text":"Add the title of your lesson and additional sections"},{"id":"adding-new-modules","depth":2,"text":"Adding new modules"},{"id":"suggestions-and-further-info","depth":2,"text":"Suggestions and further info"}]}},"_type":"markdown","_id":"local_fs:README.md","_source":"local_fs","_file":"README.md","_extension":"md","plainText":"# NEBULA-content-template\nThis template repository can be used to create an easily maintainable, version-controllable, web-based lesson collection to be deployed with the [NEBULA framework](https://github.com/esciencecenter-digital-skills/NEBULA).\n\n## Repo instantiation\nTo create a custom-made lesson repository, click the `Use this template` button located at the top right of this page.\n\n## Configure GitHub Pages\nAfter instantiation, you need to set up your repo's GitHub Pages. Follow these steps:\n- Go to `Settings` (located on the top toolbar), and then click on `Pages`.\n- Under the `Branch` option, select the `gh-pages` branch and then click `Save`. Use the `/root` folder as the default.\n- Return to your main repository page.\n- In the `About` section of your repository details, find the `Website` field and select `Use your GitHub Pages website`.\n\n## Add the title of your lesson and additional sections\nThis can be configured through the `config.json` file. Below is an example of its contents:\n```\n{\n \"publicProps\": {\n \"title\": \"Add a title for your lesson/project\",\n \"baseURL\": \"NEBULA-content-template\",\n \"repoName\": \"NEBULA-content-template\",\n \"repoOwner\": \"esciencecenter-digital-skills\",\n \"organization\": \"Netherlands eScience Center\",\n \"categoryOrder\": [\"Category1\", \"Category2\"]\n }\n}\n```\nYou can modify the `\"title\"` field to reflect your specific topic and add new sections to your lesson under `\"categoryOrder\"`.\n\nThe `\"repoName\"` and `\"baseURL\"` fields are automatically updated to the name of your new repository using the [generate_config.yml](https://github.com/esciencecenter-digital-skills/NEBULA-content-template/blob/main/.github/workflows/generate_config.yml) file. The corresponding workflow is triggered only once upon repository instantiation and is subsequently disabled.\n\n## Adding new modules\nThis repository includes dummy model modules as templates that you can follow to create your own modules. Please, follow the recommended formats and file extensions.\nSee also [NEBULA-docs](https://github.com/esciencecenter-digital-skills/NEBULA-docs) for information on how to create new modules.\n\n## Suggestions and further info\nSuggestions are always welcome.\nFor this and any other issues, we invite you contribute to the project by creating `Issues` and `Pull requests`.\nIf needed, you can also contact us directly:\n- Carlos M. R. Rocha: c.rocha@esciencecenter.nl\n- Jaro Camphuijsen: j.camphuijsen@esciencecenter.nl\n- Robin Richardson: r.richardson@esciencecenter.nl\n\n\n"}],"navigation":[{"title":"Config","_path":"/config"},{"title":"Hello world","_path":"/"},{"title":"LICENSE","_path":"/license"},{"title":"Main","_path":"/main","children":[{"title":"About","_path":"/main/about"},{"title":"Contribute","_path":"/main/contribute"}]},{"title":"Modules","_path":"/modules","children":[{"title":"API design","_path":"/modules/api-design","children":[{"title":"Background unit 6","_path":"/modules/api-design/context"},{"title":"Further Reading","_path":"/modules/api-design/further_reading"},{"title":"API design","_path":"/modules/api-design"},{"title":"Learning objectives","_path":"/modules/api-design/info"},{"title":"Unit 6 Instructions","_path":"/modules/api-design/instructions"},{"title":"API design","_path":"/modules/api-design/slides-api-design"},{"title":"Teaching 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objectives","_path":"/modules/contribution-to-open-source-software/info"},{"title":"Unit 4 Instructions","_path":"/modules/contribution-to-open-source-software/instructions"},{"title":"Contributing to Open Source software","_path":"/modules/contribution-to-open-source-software/slides-contributing-to-open-source-software"},{"title":"Teaching Material","_path":"/modules/contribution-to-open-source-software/teaching_material"}]},{"title":"Data processing and data storage","_path":"/modules/data-processing-and-data-storage","children":[{"title":"Background unit 7","_path":"/modules/data-processing-and-data-storage/context"},{"title":"Further Reading","_path":"/modules/data-processing-and-data-storage/further_reading"},{"title":"Data processing and data storage","_path":"/modules/data-processing-and-data-storage"},{"title":"Learning objectives","_path":"/modules/data-processing-and-data-storage/info"},{"title":"Unit 7 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Material","_path":"/modules/github-the-basics/teaching_material"}]},{"title":"Human aspects of Software Engineering","_path":"/modules/human-aspects-of-software-engineering","children":[{"title":"Background unit 2","_path":"/modules/human-aspects-of-software-engineering/context"},{"title":"Further Reading","_path":"/modules/human-aspects-of-software-engineering/further_reading"},{"title":"Human aspects of Software Engineering","_path":"/modules/human-aspects-of-software-engineering"},{"title":"Learning objectives","_path":"/modules/human-aspects-of-software-engineering/info"},{"title":"Unit 2 Instructions","_path":"/modules/human-aspects-of-software-engineering/instructions"},{"title":"human aspects of software engineering","_path":"/modules/human-aspects-of-software-engineering/slides-human-aspects-of-software-engineering"},{"title":"Teaching 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libraries","_path":"/modules/oss-libraries","children":[{"title":"Background unit 1","_path":"/modules/oss-libraries/context"},{"title":"Further Reading","_path":"/modules/oss-libraries/further_reading"},{"title":"OSS libraries","_path":"/modules/oss-libraries"},{"title":"Learning objectives","_path":"/modules/oss-libraries/info"},{"title":"Unit 1 Instructions","_path":"/modules/oss-libraries/instructions"},{"title":"Using OSS libraries","_path":"/modules/oss-libraries/slides-oos-libraries"},{"title":"Teaching Material","_path":"/modules/oss-libraries/teaching_material"}]},{"title":"Performance optimization and parallelization","_path":"/modules/performance-optimization-and-parallelization","children":[{"title":"Background unit 5","_path":"/modules/performance-optimization-and-parallelization/context"},{"title":"Further Reading","_path":"/modules/performance-optimization-and-parallelization/further_reading"},{"title":"Performance optimization and 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eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

Module1

Research software

module icon

Programming paradigms

module icon

Data structures and algorithm complexity

module icon

Software architecture design

module icon

Performance optimization and parallelization

module icon

API design

module icon

Data processing and data storage

module icon

Module2

Software Modularity

module icon

Software testing

module icon

Readability and code formatting

module icon

Notebooks & literate programming

module icon

Requirement engineering

module icon

Module3

GitHub the basics

module icon

Collaboration using GitHub

module icon

Code Review

module icon

Module4

OSS libraries

module icon

Human aspects of Software Engineering

module icon

Open Science and Reproducible Research

module icon

Contributing to Open Source software

module icon

Licensing

module icon
These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
- \ No newline at end of file +
eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

Module1

Research software

module icon

Programming paradigms

module icon

Data structures and algorithm complexity

module icon

Software architecture design

module icon

Performance optimization and parallelization

module icon

API design

module icon

Data processing and data storage

module icon

Module2

Software Modularity

module icon

Software testing

module icon

Readability and code formatting

module icon

Notebooks & literate programming

module icon

Requirement engineering

module icon

Module3

GitHub the basics

module icon

Collaboration using GitHub

module icon

Code Review

module icon

Module4

OSS libraries

module icon

Human aspects of Software Engineering

module icon

Open Science and Reproducible Research

module icon

Contributing to Open Source software

module icon

Licensing

module icon
These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

About this lesson/project

Provide details about the project and lesson.

Target audience

Define target audience for this material.

These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
- \ No newline at end of file +
eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

About this lesson/project

Provide details about the project and lesson.

Target audience

Define target audience for this material.

These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

Contributing to this lesson

Add contributing guidelines for you project.

These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
- \ No newline at end of file +
eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

Contributing to this lesson

Add contributing guidelines for you project.

These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

Background

API design refers to the process of developing application programming interfaces (APIs) that expose data and application functionality for use by developers and users. APIs are important to modern organizations, adding new capabilities to everything from their operations/products to their partnership strategies. It is no longer a stretch to say that most organizations do not ask whether to engage in API programs, but how to do so” 3

These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
- \ No newline at end of file +
eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

Background

API design refers to the process of developing application programming interfaces (APIs) that expose data and application functionality for use by developers and users. APIs are important to modern organizations, adding new capabilities to everything from their operations/products to their partnership strategies. It is no longer a stretch to say that most organizations do not ask whether to engage in API programs, but how to do so” 3

These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

Further Reading

Extra material

Data- Manipulating Strings, by Daniel Shiffman, processing.org Tutorial.

Processing-in-Memory Course: How to Evaluate Data Movement Bottlenecks talk, 1 hours

Time Series Forecasting Theory, by [time series, 54mn]time series, 54mn

Data Processing in Python with Pandas, by Daniel Chen SciPy 2019 Tutorial, 3hours.

Data Analysis with Python - Full Course for Beginners Online course, 4hours

These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
- \ No newline at end of file +
eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

Further Reading

Extra material

Data- Manipulating Strings, by Daniel Shiffman, processing.org Tutorial.

Processing-in-Memory Course: How to Evaluate Data Movement Bottlenecks talk, 1 hours

Time Series Forecasting Theory, by [time series, 54mn]time series, 54mn

Data Processing in Python with Pandas, by Daniel Chen SciPy 2019 Tutorial, 3hours.

Data Analysis with Python - Full Course for Beginners Online course, 4hours

These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

After completing unit 6 you will have acquired a basic concept of API design what is an API, exploring APIs, and using APIs.

  • Understand the Role of APIs in Modern design: Learners will be able to explain the significance of APIs in enhancing organizational operations, products, and partnerships, and why API programs are essential in today's technological landscape.
  • Grasp Fundamental Concepts of API Design: Learners will be able to identify key principles of API design, including exposing data and functionality effectively for developer and user interaction.
  • Apply Basic API Usage Skills
    will be able to utilize APIs by following the "APIs for Beginners" tutorial, demonstrating the ability to interact with APIs, retrieve data, and integrate API functionality into applications.
These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
- \ No newline at end of file +
eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

After completing unit 6 you will have acquired a basic concept of API design what is an API, exploring APIs, and using APIs.

  • Understand the Role of APIs in Modern design: Learners will be able to explain the significance of APIs in enhancing organizational operations, products, and partnerships, and why API programs are essential in today's technological landscape.
  • Grasp Fundamental Concepts of API Design: Learners will be able to identify key principles of API design, including exposing data and functionality effectively for developer and user interaction.
  • Apply Basic API Usage Skills
    will be able to utilize APIs by following the "APIs for Beginners" tutorial, demonstrating the ability to interact with APIs, retrieve data, and integrate API functionality into applications.
These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

Instructions

For Unit 6, we selected a couple of references which will help you to acquire the necessary knowledge on API-design. As main material for Unit 6, we suggest following the 2-hour Tutorial APIs for Beginners - How to use an API, by freeCodeCamp.org 1.

As usual for those who prefer reading material, we suggest reading the book chapter General introduction and Design API patterns 2. Finally, for a quick introduction to understanding APIs, we suggest reading the Red Hat® Shares newsletter, Understanding APIs 3.

To complete Unit 6, you are expected to:

  • Read/watch the suggested teaching material.
  • Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach.
  • Please send the list of questions to your coach one day before.

Important: the proposed material includes hands-on assignments. Do try them and if you encounter issues you cannot solve, do share them with your coach.

Time expected to complete this unit: 4 hours

These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
- \ No newline at end of file +
eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

Instructions

For Unit 6, we selected a couple of references which will help you to acquire the necessary knowledge on API-design. As main material for Unit 6, we suggest following the 2-hour Tutorial APIs for Beginners - How to use an API, by freeCodeCamp.org 1.

As usual for those who prefer reading material, we suggest reading the book chapter General introduction and Design API patterns 2. Finally, for a quick introduction to understanding APIs, we suggest reading the Red Hat® Shares newsletter, Understanding APIs 3.

To complete Unit 6, you are expected to:

  • Read/watch the suggested teaching material.
  • Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach.
  • Please send the list of questions to your coach one day before.

Important: the proposed material includes hands-on assignments. Do try them and if you encounter issues you cannot solve, do share them with your coach.

Time expected to complete this unit: 4 hours

These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

Teaching Material

These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
- \ No newline at end of file +
eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

Teaching Material

These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

Background

Code reviews has helps to improve code quality by detecting issues before they snowball out of control and ensuring consistent standards. This leads to robust software that is built from components for seamless integration and functionality. Code reviews also help the knowledge transfer among the software development team a source code that is constantly under review allows developers to learn more reliable techniques and best practices.

These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
- \ No newline at end of file +
eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

Background

Code reviews has helps to improve code quality by detecting issues before they snowball out of control and ensuring consistent standards. This leads to robust software that is built from components for seamless integration and functionality. Code reviews also help the knowledge transfer among the software development team a source code that is constantly under review allows developers to learn more reliable techniques and best practices.

These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

Further Reading

These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
- \ No newline at end of file +
eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

Further Reading

These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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eScience Internal Training
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No Title

  • after completing Unit 3 you will have learned -learn the basics of a good code review.

Note: Unit 1 does not involve practical hands-on; after completing Unit 1 you will have learned some of basics of modular programming and you should be able to apply the principle you have learned in this unit in your research projects.

These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
- \ No newline at end of file +learn the basics of a good code review.

Note: Unit 1 does not involve practical hands-on; after completing Unit 1 you will have learned some of basics of modular programming and you should be able to apply the principle you have learned in this unit in your research projects.

These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

Instructions

Three references are proposed for to cover review. 1 a talk given at PyGotham 2018 conference, you will learn practical techniques to improve communication and minimize conflict during code reviews: Reducing human effort of reviews through automation, increase review velocity, give sincere praise, Framing discussions for constructive debate, and Mitigating stalemates. 2 is also a talk given at Goto Conference 2019 the talk. It gives some hints to avoid reviews that barely scratch the surface of the work being put forth, or reviews that offer feedback that is unclear or hard to act upon.

To complete Unit 3, you are expected to:

  • Read/watch the suggested teaching material
  • Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach.
  • Please send the list of questions to your coach one day before the weekly meetings..

Time expected to complete this unit: 4 hours

These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
- \ No newline at end of file +
eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

Instructions

Three references are proposed for to cover review. 1 a talk given at PyGotham 2018 conference, you will learn practical techniques to improve communication and minimize conflict during code reviews: Reducing human effort of reviews through automation, increase review velocity, give sincere praise, Framing discussions for constructive debate, and Mitigating stalemates. 2 is also a talk given at Goto Conference 2019 the talk. It gives some hints to avoid reviews that barely scratch the surface of the work being put forth, or reviews that offer feedback that is unclear or hard to act upon.

To complete Unit 3, you are expected to:

  • Read/watch the suggested teaching material
  • Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach.
  • Please send the list of questions to your coach one day before the weekly meetings..

Time expected to complete this unit: 4 hours

These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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improvement\n",{"type":16,"tag":36,"props":1421,"children":1422},{},[1423],{"type":16,"tag":40,"props":1424,"children":1425},{},[1426],{"type":22,"value":1427},"practices, principles enhance collaboration and communication between software development and IT operations teams",{"type":16,"tag":40,"props":1429,"children":1430},{},[1431,1433],{"type":22,"value":1432},"The primary objective is to\n",{"type":16,"tag":36,"props":1434,"children":1435},{},[1436,1441,1446,1451,1456,1461,1466],{"type":16,"tag":40,"props":1437,"children":1438},{},[1439],{"type":22,"value":1440},"increase the speed, quality, and reliability",{"type":16,"tag":40,"props":1442,"children":1443},{},[1444],{"type":22,"value":1445},"Continuous integration (CI)",{"type":16,"tag":40,"props":1447,"children":1448},{},[1449],{"type":22,"value":1450},"Monitoring and 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specific needs and constraints.The primary objective is to increase the speed, quality, and reliability of software delivery",{"type":16,"tag":24,"props":1492,"children":1493},{},[1494],{"type":22,"value":9},{"type":16,"tag":29,"props":1496,"children":1498},{"id":1497},"reusability-of-research-software",[1499],{"type":22,"value":1500},"Reusability of Research software",{"type":16,"tag":701,"props":1502,"children":1503},{"style":703},[1504],{"type":16,"tag":36,"props":1505,"children":1506},{},[1507],{"type":16,"tag":40,"props":1508,"children":1509},{},[1510,1512],{"type":22,"value":1511},"Does following SE best practices guarantee re-usability and user adoption?\n",{"type":16,"tag":36,"props":1513,"children":1514},{},[1515,1520],{"type":16,"tag":40,"props":1516,"children":1517},{},[1518],{"type":22,"value":1519},"it should in increase adoption,",{"type":16,"tag":40,"props":1521,"children":1522},{},[1523],{"type":22,"value":1524},"Beyond FAIR",{"type":16,"tag":701,"props":1526,"children":1527},{"style":1473},[1528],{"type":16,"tag":651,"props":1529,"children":1531},{"src":1530,"width":730},"media/STEM-Research-software-writing19.jpg",[],{"type":16,"tag":24,"props":1533,"children":1534},{},[1535],{"type":22,"value":59},{"type":16,"tag":36,"props":1537,"children":1538},{},[1539,1557,1570],{"type":16,"tag":40,"props":1540,"children":1541},{},[1542,1544],{"type":22,"value":1543},"Identify\n",{"type":16,"tag":36,"props":1545,"children":1546},{},[1547,1552],{"type":16,"tag":40,"props":1548,"children":1549},{},[1550],{"type":22,"value":1551},"the competition",{"type":16,"tag":40,"props":1553,"children":1554},{},[1555],{"type":22,"value":1556},"the Unique seling point",{"type":16,"tag":40,"props":1558,"children":1559},{},[1560,1562],{"type":22,"value":1561},"Reach out potential\n",{"type":16,"tag":36,"props":1563,"children":1564},{},[1565],{"type":16,"tag":40,"props":1566,"children":1567},{},[1568],{"type":22,"value":1569},"Tutorials/demos/papers",{"type":16,"tag":40,"props":1571,"children":1572},{},[1573],{"type":22,"value":1574},"Dont forget to make the software repository public",{"type":16,"tag":24,"props":1576,"children":1577},{},[1578],{"type":22,"value":9},{"type":16,"tag":29,"props":1580,"children":1582},{"id":1581},"takeaway",[1583],{"type":22,"value":1584},"Takeaway",{"type":16,"tag":701,"props":1586,"children":1587},{"style":703},[1588],{"type":16,"tag":36,"props":1589,"children":1590},{},[1591,1609],{"type":16,"tag":40,"props":1592,"children":1593},{},[1594,1596],{"type":22,"value":1595},"Developing a software is\n",{"type":16,"tag":36,"props":1597,"children":1598},{},[1599,1604],{"type":16,"tag":40,"props":1600,"children":1601},{},[1602],{"type":22,"value":1603},"a long and tedious process",{"type":16,"tag":40,"props":1605,"children":1606},{},[1607],{"type":22,"value":1608},"it worth to defend and sustaining but not at all costs",{"type":16,"tag":40,"props":1610,"children":1611},{},[1612,1614],{"type":22,"value":1613},"Suggestions:\n",{"type":16,"tag":36,"props":1615,"children":1616},{},[1617],{"type":16,"tag":40,"props":1618,"children":1619},{},[1620],{"type":22,"value":1621},"Don’t fall in Love with your software When needed drop it and use another solution",{"type":16,"tag":701,"props":1623,"children":1624},{"style":1473},[1625],{"type":16,"tag":651,"props":1626,"children":1628},{"src":1627,"width":730},"media/STEM-Research-software-writing20.png",[],{"type":16,"tag":24,"props":1630,"children":1631},{},[1632],{"type":22,"value":9},{"type":16,"tag":24,"props":1634,"children":1635},{},[1636],{"type":16,"tag":743,"props":1637,"children":1640},{"href":1638,"rel":1639},"http://www.esciencecenter.nl",[1169],[1641],{"type":22,"value":1642},"www.esciencecenter.nl",{"type":16,"tag":24,"props":1644,"children":1645},{},[1646],{"type":16,"tag":743,"props":1647,"children":1649},{"href":1648},"mailto:info@esciencecenter.nl",[1650],{"type":22,"value":1651},"info@esciencecenter.nl",{"type":16,"tag":24,"props":1653,"children":1654},{},[1655],{"type":22,"value":1656},"020 - 460 47 70",{"title":7,"searchDepth":1658,"depth":1658,"links":1659},2,[1660,1661,1662,1663,1664,1665,1666,1667,1668,1669,1670,1671],{"id":31,"depth":1658,"text":34},{"id":422,"depth":1658,"text":425},{"id":643,"depth":1658,"text":425},{"id":662,"depth":1658,"text":665},{"id":679,"depth":1658,"text":682},{"id":696,"depth":1658,"text":699},{"id":926,"depth":1658,"text":929},{"id":1100,"depth":1658,"text":1103},{"id":1178,"depth":1658,"text":1181},{"id":1405,"depth":1658,"text":1408},{"id":1497,"depth":1658,"text":1500},{"id":1581,"depth":1658,"text":1584},"markdown","local_fs:modules:Code-review:slides-reasearch-software.md","local_fs","modules/Code-review/slides-reasearch-software.md","md","---\ntitle: Research Software \ntype: slides\norder: 3\n---\n\n\u003C!-- .slide: data-state=\"title\" -->\n\n# Research Software \n\n===\n\n\u003C!-- .slide: data-state=\"standard\" -->\n\n## What is research software?\n \n- Writing research software involves a unique set of challenges and considerations. \n- Research software development is an iterative process, and adapting to emerging best practices and community standards is crucial for success. \n- Collaboration and open communication with colleagues and the research community are key to producing high-quality research software.\n\nNote: \n\nHere are some best practices to keep in mind when developing research software:\n1. **Plan and Design Carefully:**\n - Start with a clear project plan and research goals.\n - Design your software architecture thoughtfully, with modularity and scalability in mind.\n - Document your software design, including data structures, algorithms, and dependencies.\n\n2. **Version Control:**\n - Use a version control system (e.g., Git) to track changes and collaborate with others.\n - Host your code on platforms like GitHub for easy collaboration and sharing.\n\n3. **Reproducibility:**\n - Make your code and research environment as reproducible as possible.\n - Document dependencies and provide setup instructions.\n - Consider containerization with tools like Docker to encapsulate the environment.\n\n4. **Documentation:**\n - Write clear and comprehensive documentation for your code.\n - Include comments in the code to explain complex logic or algorithms.\n - Use tools like Jupyter Notebooks for interactive documentation.\n\n5. **Testing:**\n - Implement unit tests, integration tests, and validation tests to ensure your software works correctly.\n - Use continuous integration (CI) to automate testing and catch errors early.\n\n6. **Performance Optimization:**\n - Optimize critical parts of your code for efficiency.\n - Use profiling tools to identify bottlenecks.\n - Consider parallelization or GPU acceleration for computationally intensive tasks.\n\n7. **Data Management:**\n - Implement data handling and storage best practices, including data cleaning and validation.\n - Use appropriate data structures and databases for efficient data management.\n\n8. **Licensing:**\n - Choose an open-source license that aligns with your project's goals (e.g., MIT, Apache, or GPL).\n - Clearly specify the license in your project repository.\n\n9. **Collaboration:**\n - Foster a collaborative environment by welcoming contributions from others.\n - Use platforms like GitHub for issue tracking and pull requests.\n\n10. **Security:**\n - Protect sensitive data and prevent security vulnerabilities.\n - Keep libraries and dependencies up to date to address security issues.\n\n11. **User-Friendly Interfaces:**\n - Develop user-friendly interfaces and command-line options.\n - Consider creating graphical user interfaces (GUIs) for non-technical users.\n\n12. **Community Building:**\n - Engage with the research community, present your work, and seek feedback.\n - Consider publishing your code and datasets in repositories like Zenodo or Figshare.\n\n13. **Citation and DOI:**\n - Assign a DOI to your software, making it citable in research publications.\n - Encourage others to cite your work when they use your software.\n\n14. **Maintenance and Sustainability:**\n - Plan for long-term maintenance and updates.\n - Seek funding or support to ensure the sustainability of your research software.\n\n15. **Ethics and Compliance:**\n - Ensure your software complies with ethical guidelines and legal regulations, especially when dealing with sensitive data.\n\n16. **Peer Review:**\n - Consider submitting your software for peer review through platforms like the Journal of Open Source Software (JOSS).\n\n===\n\n\u003C!-- .slide: data-state=\"standard\" -->\n\n## Research Software lifecycle \n\n| steps | Authors |\n| :-- | :-- |\n| 1. Conducting Research | Individual / team |\n| **\u003Cu>Design phase:\u003C/u>** **(2)** Software architecture **(3)** Check open source | Individual / team |\n| **\u003Cu>Coding phase:\u003C/u>** **(4)** Choose a language **(5)** Separation of Concern (Modularity) **(6)** Apply software patterns | Individual / team |\n| **\u003Cu>Testing Phase:\u003C/u>** **(7)** Unit testing / Integration / Performance / Security | Individual / team |\n| **\u003Cu>Documentation:\u003C/u>** **(8)** User documentation/ developer / Tutorials / publication | Individual / team |\n| **\u003Cu>Distribution:\u003C/u>** **(9)** Choose a licence **(11.** publication **(12)** make you software public | Individual / team |\n\n===\n\n\u003C!-- .slide: data-state=\"standard\" -->\n\n## Research Software lifecycle \n\n\n\u003Ccenter>\n\u003Cimg src=\"media/Res-soft-lifecycle.png\" width=\"90%\">\n\u003C/center>\n\n===\n\n\u003C!-- .slide: data-state=\"standard\" -->\n\n## Research software in all scientific disciplines\n \n\u003Ccenter>\n\u003Cimg src=\"media/Res-soft-all.png\" width=\"90%\">\n\u003C/center>\n\n===\n\n\u003C!-- .slide: data-state=\"standard\" -->\n\n## Research software requirements\n \n\u003Ccenter>\n\u003Cimg src=\"media/Res-soft-motiv.png\" width=\"90%\">\n\u003C/center>\n\n===\n\n\u003C!-- .slide: data-state=\"standard\" -->\n\n## Re-use existing open-Source software\n\n\u003Cdiv style=\"width: 50%; float: left\">\n\n- Available for free*\n- Maintained by volunteers\n- Documentation not always up to date\n\n\u003C/div>\n\n\u003Cdiv style=\"width: 50%; float: right\">\n\u003Cimg src=\"media/STEM-Research-software-writing11.png\" width=\"100%\">\n\u003C/div>\n\n\u003Cdiv style=\"float: left; clear: both; padding-left: 35%; padding-top: 3em\">\n\u003Csmall>Photo by \u003Ca href=\"https://unsplash.com/@stephaniemoarr?utm_content=creditCopyText&utm_medium=referral&utm_source=unsplash\">xxxx\u003C/a> on \u003Ca href=\"https://unsplash.com/photos/person-holding-white-ceramic-mug-DGt9zA3Fr0g?utm_content=creditCopyText&utm_medium=referral&utm_source=unsplash\">xxxx\u003C/a>\u003C/small>\n\u003C/div>\n \n\nNote: \n\nHow-to\n - **How:** Search engines: searchcode.com\" or \"searchcode.com\n - **Where:** Platforms and directories for open-source software, such as GitHub, GitLab, SourceForge, and Bitbucket\n - **Easy Install**: Package Mangers: make it easy to find and install open-source libraries: pip (Python), npm(Node.js), and RubyGems,(Ruby) …\n - **Under a License**: Apache, MIT, GPL, LGPL, BCD CC*\n - A software license is a legal agreement that define the terms and conditions under which software can be used, distributed, modified, and shared\n\n\nThese licenses serve to protect the rights of the software developer while also defining what users are allowed to do with the software. \nHere are some key components typically found in software licenses:\n\n1. **License Grant:** This section describes what the software license allows users to do. It may specify whether the software can be used, copied, modified, or distributed.\n\n2. **Restrictions:** These are limitations placed on the user, such as restrictions on reverse engineering, decompiling, or using the software for specific purposes.\n\n3. **Usage Terms:** This section may include usage terms, such as the number of users or devices that can use the software, the duration of the license, and whether the license is transferable.\n\n4. **Distribution:** If the software can be distributed, the license may specify the conditions under which it can be shared or sold.\n\n5. **Modification:** If users are allowed to modify the software, the license might specify the terms for sharing those modifications, including whether they must be open source or can remain proprietary.\n\n6. **Attribution:** Some licenses require users to provide attribution to the original software developer in their own work.\n\n7. **Warranty and Liability:** This section outlines the warranty, if any, provided with the software. It may also specify the extent of liability of the software developer for any damages or issues arising from the software's use.\n\n8. **Termination:** The license may include conditions under which it can be terminated, such as non-compliance with the license terms.\n\n9. **Governing Law:** This indicates which jurisdiction's laws will govern the license agreement.\n\nCommon types of software licenses include open source licenses like the MIT License, Apache License, and GNU General Public License (GPL), as well as proprietary licenses used for commercial software. Each type of license comes with its own set of terms and conditions, ranging from highly permissive (e.g., MIT License) to more restrictive (e.g., some proprietary licenses).\n\nIt's essential to carefully read and understand the terms of a software license before using or distributing the software, as violation of the license terms can have legal consequences. Additionally, some licenses are not compatible with one another, so it's crucial to ensure that the software's licenses align with your intended use and distribution.\n\n\n===\n\n\u003C!-- .slide: data-state=\"standard\" -->\n\n## Programming \n\n\n There are several programming paradigms, which are different approaches to writing code and structuring programs\n\n\u003Cdiv style=\"width: 50%; float: left\">\n\n- Procedural Programming\n - Object-Oriented Programming \n - Functional Programming \n - Declarative Programming\n - Logic Programming\n - Concurrent and Parallel Programming\n - Event-Driven Programming\n\u003C/div>\n\n\u003Cdiv style=\"width: 50%; float: right\">\n\u003Cimg src=\"media/STEM-Research-software-writing12.png\" width=\"100%\">\n\u003C/div>\n\n\u003Cdiv style=\"float: left; clear: both; padding-left: 35%; padding-top: 3em\">\n\u003Csmall>Photo by \u003Ca href=\"https://unsplash.com/@stephaniemoarr?utm_content=creditCopyText&utm_medium=referral&utm_source=unsplash\">xxxx\u003C/a> on \u003Ca href=\"https://unsplash.com/photos/person-holding-white-ceramic-mug-DGt9zA3Fr0g?utm_content=creditCopyText&utm_medium=referral&utm_source=unsplash\">xxxx\u003C/a>\u003C/small>\n\u003C/div>\n\nNote: \n\n- Don’t get into religious programming discussion and attitude.\n- Choose based on what fits best\n - Expressiveness\n - Ease of use\n - Eco-systems (libraries, tools for debugging, community)\n- Imperative Programming: In imperative programming, you provide explicit instructions for the computer to follow, specifying the sequence of steps to achieve a particular result. Languages like C, C++, and Pascal are often associated with this paradigm.\n- Procedural Programming: Procedural programming is a subset of imperative programming where code is organized into procedures or functions. It promotes code reusability and maintainability. C and Pascal are examples of languages that support procedural programming.\n- Object-Oriented Programming (OOP): In OOP, programs are structured around objects, which encapsulate data and behavior. Key concepts include classes, inheritance, and polymorphism. Java, C++, and Python are popular OOP languages.\n- Functional Programming (FP): Functional programming treats computation as the evaluation of mathematical functions and avoids changing state and mutable data. It relies heavily on functions as first-class citizens. Languages like Haskell, Lisp, and Erlang are associated with this paradigm.\n- Declarative Programming: In declarative programming, you specify what you want to achieve without detailing how it should be done. SQL, for example, is a declarative language used for querying databases.\n- Logic Programming: Logic programming is based on formal logic and rule-based systems. Prolog is a well-known logic programming language used for symbolic reasoning and knowledge representation.\n- Event-Driven Programming: This paradigm is common in GUI programming and systems where code responds to events or messages. Event-driven languages include JavaScript and Python (with libraries like Tkinter).\nAspect-Oriented Programming (AOP): AOP is a complement to OOP. It focuses on separating cross-cutting concerns (e.g., logging, security) from the main program logic. AspectJ is a popular AOP extension for Java.\n- Concurrent and Parallel Programming: These paradigms address multi-threading, parallel processing, and synchronization. Languages like Go, Erlang, and Java provide features for concurrent and parallel programming.\n- Meta-Programming: Meta-programming is a programming technique where code generates, modifies, or analyzes other code. It's often used in code generation and domain-specific languages.\n- Scripting: Scripting languages are designed for quick, dynamic, and interpreted scripting tasks. Python, Ruby, and - JavaScript are scripting languages commonly used for automation and web development.\n- Array Programming: Array programming emphasizes operations on entire arrays rather than individual elements. Languages like MATLAB and NumPy (Python library) support array programming.\n- Reactive Programming\n\n===\n\n\u003C!-- .slide: data-state=\"standard\" -->\n\n\n## Programming Languages\n\n\u003C!-- ![](media/STEM-Research-software-writing13.jpg)-->\n\n\u003Cdiv style=\"width: 50%; float: left\">\n\nDon’t get into religious programming discussion and attitude\\.\n- Choose based on what fits best\n - Expressiveness\n - Ease of use\n - Eco-systems (libraries, tools for debugging, community)\n\n \u003C/div>\n\n\u003Cdiv style=\"width: 50%; float: right\">\n\u003Cimg src=\"media/STEM-Research-software-writing14.jpg\" width=\"100%\">\n\u003C/div>\n\u003Cdiv style=\"float: left; clear: both; padding-left: 35%; padding-top: 3em\">\n\u003Csmall>Photo by \u003Ca href=\"https://unsplash.com/@stephaniemoarr?utm_content=creditCopyText&utm_medium=referral&utm_source=unsplash\">xxxx\u003C/a> on \u003Ca href=\"https://unsplash.com/photos/person-holding-white-ceramic-mug-DGt9zA3Fr0g?utm_content=creditCopyText&utm_medium=referral&utm_source=unsplash\">xxxx\u003C/a>\u003C/small>\n\u003C/div>\n\nNote: \n\n[https://en.wikipedia.org/wiki/Comparison_of_multi-paradigm_programming_languages](https://en.wikipedia.org/wiki/Comparison_of_multi-paradigm_programming_languages) \n\n===\n\n\u003C!-- .slide: data-state=\"standard\" -->\n\n## Software Architecture\n\n\u003Cdiv style=\"width: 50%; float: left\">\n\nDesign\n- Functional vs Non-functional requirements\n- Architecture style\n- Component design\n- Software patterns\n- Scalability\n- Security Performance\n- Deployment and hosting\n- Monitoring and logging\n- Compliance and standards\n- Change management\n- Review and validation\n\u003C/div>\n\n\u003Cdiv style=\"width: 50%; float: right\">\n\u003Cimg src=\"media/STEM-Research-software-writing15.jpg\" width=\"100%\">\n\u003C/div>\n\u003Cdiv style=\"float: left; clear: both; padding-left: 35%; padding-top: 3em\">\n\u003Csmall>Photo by \u003Ca href=\"https://unsplash.com/@stephaniemoarr?utm_content=creditCopyText&utm_medium=referral&utm_source=unsplash\">xxxx\u003C/a> on \u003Ca href=\"https://unsplash.com/photos/person-holding-white-ceramic-mug-DGt9zA3Fr0g?utm_content=creditCopyText&utm_medium=referral&utm_source=unsplash\">xxxx\u003C/a>\u003C/small>\n\u003C/div>\u003C!-- ![](media/STEM-Research-software-writing16.jpg) -->\n\nNote:\n - Use appropriate Tools:\n - provide features for creating architectural diagrams, defining components, and visualizing the structure of a software system\n\n[https://softwarearchitecture.tools/#diagramming-tools](https://softwarearchitecture.tools/#diagramming-tools)\n\n\u003C!-- ![](media/STEM-Research-software-writing17.jpg) --> \n\n===\n\n\u003C!-- .slide: data-state=\"standard\" -->\n\n# Software engineering best practices\n\n\n\u003Cdiv style=\"width: 50%; float: left\">\n\n- Modular and Scalable Design\n- Version control\n- Coding Standards (Readability/code formatting)\n- Test-Driven Development\n- Code Reviews\n- continuous Integration (CI) and Continuous Delivery (CD)\n- Bug Tracking and Issue Management\n- Security Practices\n- Performance Optimization\n- User Experience (UX) and Usability\n- Documentation\n\u003C/div>\n\n\u003Cdiv style=\"width: 50%; float: right\">\n\u003Cimg src=\"media/STEM-Research-software-writing17.jpg\" width=\"100%\">\n\u003C/div>\n\n\nNote:\n\nUse of Integrated Development Environment (IDE)\n\nhttps://sourceforge\\.net/directory/integrated\\-development\\-environments\\-ide/mac/\n\n===\n\n\u003C!-- .slide: data-state=\"standard\" -->\n\n## DevOpsTeam development\n\n\u003Cdiv style=\"width: 50%; float: left\">\n\n- DevOps foster a culture of collaboration and continuous improvement\n - practices, principles enhance collaboration and communication between software development and IT operations teams\n- The primary objective is to\n - increase the speed, quality, and reliability\n - Continuous integration (CI)\n - Monitoring and Feedback\n - Security\n - Microservices and containers\n - Scalability and Resilience\n - DevOps toolchain\n\u003C/div>\n\u003Cdiv style=\"width:50%; float: right\">\n\u003Cimg src=\"media/STEM-Research-software-writing18.png\" width=\"100%\">\n\u003C/div>\n\nNote:\n\n- DevOpsis not a one-size-fits-all approach, and its implementation can vary depending on an organization's specific needs and constraints.The primary objective is to increase the speed, quality, and reliability of software delivery\n\n===\n\n\u003C!-- .slide: data-state=\"standard\" -->\n\n## Reusability of Research software\n\n\n\u003Cdiv style=\"width: 50%; float: left\">\n\n- Does following SE best practices guarantee re-usability and user adoption?\n - it should in increase adoption,\n - Beyond FAIR\n\u003C/div>\n\u003Cdiv style=\"width:50%; float: right\">\n\u003Cimg src=\"media/STEM-Research-software-writing19.jpg\" width=\"100%\">\n\u003C/div>\n\n\nNote:\n\n- 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specific needs and constraints.The primary objective is to increase the speed, quality, and reliability of software delivery",{"type":16,"tag":24,"props":1492,"children":1493},{},[1494],{"type":22,"value":9},{"type":16,"tag":29,"props":1496,"children":1498},{"id":1497},"reusability-of-research-software",[1499],{"type":22,"value":1500},"Reusability of Research software",{"type":16,"tag":701,"props":1502,"children":1503},{"style":703},[1504],{"type":16,"tag":36,"props":1505,"children":1506},{},[1507],{"type":16,"tag":40,"props":1508,"children":1509},{},[1510,1512],{"type":22,"value":1511},"Does following SE best practices guarantee re-usability and user adoption?\n",{"type":16,"tag":36,"props":1513,"children":1514},{},[1515,1520],{"type":16,"tag":40,"props":1516,"children":1517},{},[1518],{"type":22,"value":1519},"it should in increase adoption,",{"type":16,"tag":40,"props":1521,"children":1522},{},[1523],{"type":22,"value":1524},"Beyond FAIR",{"type":16,"tag":701,"props":1526,"children":1527},{"style":1473},[1528],{"type":16,"tag":651,"props":1529,"children":1531},{"src":1530,"width":730},"media/STEM-Research-software-writing19.jpg",[],{"type":16,"tag":24,"props":1533,"children":1534},{},[1535],{"type":22,"value":59},{"type":16,"tag":36,"props":1537,"children":1538},{},[1539,1557,1570],{"type":16,"tag":40,"props":1540,"children":1541},{},[1542,1544],{"type":22,"value":1543},"Identify\n",{"type":16,"tag":36,"props":1545,"children":1546},{},[1547,1552],{"type":16,"tag":40,"props":1548,"children":1549},{},[1550],{"type":22,"value":1551},"the competition",{"type":16,"tag":40,"props":1553,"children":1554},{},[1555],{"type":22,"value":1556},"the Unique seling point",{"type":16,"tag":40,"props":1558,"children":1559},{},[1560,1562],{"type":22,"value":1561},"Reach out potential\n",{"type":16,"tag":36,"props":1563,"children":1564},{},[1565],{"type":16,"tag":40,"props":1566,"children":1567},{},[1568],{"type":22,"value":1569},"Tutorials/demos/papers",{"type":16,"tag":40,"props":1571,"children":1572},{},[1573],{"type":22,"value":1574},"Dont forget to make the software repository public",{"type":16,"tag":24,"props":1576,"children":1577},{},[1578],{"type":22,"value":9},{"type":16,"tag":29,"props":1580,"children":1582},{"id":1581},"takeaway",[1583],{"type":22,"value":1584},"Takeaway",{"type":16,"tag":701,"props":1586,"children":1587},{"style":703},[1588],{"type":16,"tag":36,"props":1589,"children":1590},{},[1591,1609],{"type":16,"tag":40,"props":1592,"children":1593},{},[1594,1596],{"type":22,"value":1595},"Developing a software is\n",{"type":16,"tag":36,"props":1597,"children":1598},{},[1599,1604],{"type":16,"tag":40,"props":1600,"children":1601},{},[1602],{"type":22,"value":1603},"a long and tedious process",{"type":16,"tag":40,"props":1605,"children":1606},{},[1607],{"type":22,"value":1608},"it worth to defend and sustaining but not at all costs",{"type":16,"tag":40,"props":1610,"children":1611},{},[1612,1614],{"type":22,"value":1613},"Suggestions:\n",{"type":16,"tag":36,"props":1615,"children":1616},{},[1617],{"type":16,"tag":40,"props":1618,"children":1619},{},[1620],{"type":22,"value":1621},"Don’t fall in Love with your software When needed drop it and use another solution",{"type":16,"tag":701,"props":1623,"children":1624},{"style":1473},[1625],{"type":16,"tag":651,"props":1626,"children":1628},{"src":1627,"width":730},"media/STEM-Research-software-writing20.png",[],{"type":16,"tag":24,"props":1630,"children":1631},{},[1632],{"type":22,"value":9},{"type":16,"tag":24,"props":1634,"children":1635},{},[1636],{"type":16,"tag":743,"props":1637,"children":1640},{"href":1638,"rel":1639},"http://www.esciencecenter.nl",[1169],[1641],{"type":22,"value":1642},"www.esciencecenter.nl",{"type":16,"tag":24,"props":1644,"children":1645},{},[1646],{"type":16,"tag":743,"props":1647,"children":1649},{"href":1648},"mailto:info@esciencecenter.nl",[1650],{"type":22,"value":1651},"info@esciencecenter.nl",{"type":16,"tag":24,"props":1653,"children":1654},{},[1655],{"type":22,"value":1656},"020 - 460 47 70",{"title":7,"searchDepth":1658,"depth":1658,"links":1659},2,[1660,1661,1662,1663,1664,1665,1666,1667,1668,1669,1670,1671],{"id":31,"depth":1658,"text":34},{"id":422,"depth":1658,"text":425},{"id":643,"depth":1658,"text":425},{"id":662,"depth":1658,"text":665},{"id":679,"depth":1658,"text":682},{"id":696,"depth":1658,"text":699},{"id":926,"depth":1658,"text":929},{"id":1100,"depth":1658,"text":1103},{"id":1178,"depth":1658,"text":1181},{"id":1405,"depth":1658,"text":1408},{"id":1497,"depth":1658,"text":1500},{"id":1581,"depth":1658,"text":1584},"markdown","local_fs:modules:Code-review:slides-reasearch-software.md","local_fs","modules/Code-review/slides-reasearch-software.md","md","---\ntitle: Research Software \ntype: slides\norder: 3\n---\n\n\u003C!-- .slide: data-state=\"title\" -->\n\n# Research Software \n\n===\n\n\u003C!-- .slide: data-state=\"standard\" -->\n\n## What is research software?\n \n- Writing research software involves a unique set of challenges and considerations. \n- Research software development is an iterative process, and adapting to emerging best practices and community standards is crucial for success. \n- Collaboration and open communication with colleagues and the research community are key to producing high-quality research software.\n\nNote: \n\nHere are some best practices to keep in mind when developing research software:\n1. **Plan and Design Carefully:**\n - Start with a clear project plan and research goals.\n - Design your software architecture thoughtfully, with modularity and scalability in mind.\n - Document your software design, including data structures, algorithms, and dependencies.\n\n2. **Version Control:**\n - Use a version control system (e.g., Git) to track changes and collaborate with others.\n - Host your code on platforms like GitHub for easy collaboration and sharing.\n\n3. **Reproducibility:**\n - Make your code and research environment as reproducible as possible.\n - Document dependencies and provide setup instructions.\n - Consider containerization with tools like Docker to encapsulate the environment.\n\n4. **Documentation:**\n - Write clear and comprehensive documentation for your code.\n - Include comments in the code to explain complex logic or algorithms.\n - Use tools like Jupyter Notebooks for interactive documentation.\n\n5. **Testing:**\n - Implement unit tests, integration tests, and validation tests to ensure your software works correctly.\n - Use continuous integration (CI) to automate testing and catch errors early.\n\n6. **Performance Optimization:**\n - Optimize critical parts of your code for efficiency.\n - Use profiling tools to identify bottlenecks.\n - Consider parallelization or GPU acceleration for computationally intensive tasks.\n\n7. **Data Management:**\n - Implement data handling and storage best practices, including data cleaning and validation.\n - Use appropriate data structures and databases for efficient data management.\n\n8. **Licensing:**\n - Choose an open-source license that aligns with your project's goals (e.g., MIT, Apache, or GPL).\n - Clearly specify the license in your project repository.\n\n9. **Collaboration:**\n - Foster a collaborative environment by welcoming contributions from others.\n - Use platforms like GitHub for issue tracking and pull requests.\n\n10. **Security:**\n - Protect sensitive data and prevent security vulnerabilities.\n - Keep libraries and dependencies up to date to address security issues.\n\n11. **User-Friendly Interfaces:**\n - Develop user-friendly interfaces and command-line options.\n - Consider creating graphical user interfaces (GUIs) for non-technical users.\n\n12. **Community Building:**\n - Engage with the research community, present your work, and seek feedback.\n - Consider publishing your code and datasets in repositories like Zenodo or Figshare.\n\n13. **Citation and DOI:**\n - Assign a DOI to your software, making it citable in research publications.\n - Encourage others to cite your work when they use your software.\n\n14. **Maintenance and Sustainability:**\n - Plan for long-term maintenance and updates.\n - Seek funding or support to ensure the sustainability of your research software.\n\n15. **Ethics and Compliance:**\n - Ensure your software complies with ethical guidelines and legal regulations, especially when dealing with sensitive data.\n\n16. **Peer Review:**\n - Consider submitting your software for peer review through platforms like the Journal of Open Source Software (JOSS).\n\n===\n\n\u003C!-- .slide: data-state=\"standard\" -->\n\n## Research Software lifecycle \n\n| steps | Authors |\n| :-- | :-- |\n| 1. Conducting Research | Individual / team |\n| **\u003Cu>Design phase:\u003C/u>** **(2)** Software architecture **(3)** Check open source | Individual / team |\n| **\u003Cu>Coding phase:\u003C/u>** **(4)** Choose a language **(5)** Separation of Concern (Modularity) **(6)** Apply software patterns | Individual / team |\n| **\u003Cu>Testing Phase:\u003C/u>** **(7)** Unit testing / Integration / Performance / Security | Individual / team |\n| **\u003Cu>Documentation:\u003C/u>** **(8)** User documentation/ developer / Tutorials / publication | Individual / team |\n| **\u003Cu>Distribution:\u003C/u>** **(9)** Choose a licence **(11.** publication **(12)** make you software public | Individual / team |\n\n===\n\n\u003C!-- .slide: data-state=\"standard\" -->\n\n## Research Software lifecycle \n\n\n\u003Ccenter>\n\u003Cimg src=\"media/Res-soft-lifecycle.png\" width=\"90%\">\n\u003C/center>\n\n===\n\n\u003C!-- .slide: data-state=\"standard\" -->\n\n## Research software in all scientific disciplines\n \n\u003Ccenter>\n\u003Cimg src=\"media/Res-soft-all.png\" width=\"90%\">\n\u003C/center>\n\n===\n\n\u003C!-- .slide: data-state=\"standard\" -->\n\n## Research software requirements\n \n\u003Ccenter>\n\u003Cimg src=\"media/Res-soft-motiv.png\" width=\"90%\">\n\u003C/center>\n\n===\n\n\u003C!-- .slide: data-state=\"standard\" -->\n\n## Re-use existing open-Source software\n\n\u003Cdiv style=\"width: 50%; float: left\">\n\n- Available for free*\n- Maintained by volunteers\n- Documentation not always up to date\n\n\u003C/div>\n\n\u003Cdiv style=\"width: 50%; float: right\">\n\u003Cimg src=\"media/STEM-Research-software-writing11.png\" width=\"100%\">\n\u003C/div>\n\n\u003Cdiv style=\"float: left; clear: both; padding-left: 35%; padding-top: 3em\">\n\u003Csmall>Photo by \u003Ca href=\"https://unsplash.com/@stephaniemoarr?utm_content=creditCopyText&utm_medium=referral&utm_source=unsplash\">xxxx\u003C/a> on \u003Ca href=\"https://unsplash.com/photos/person-holding-white-ceramic-mug-DGt9zA3Fr0g?utm_content=creditCopyText&utm_medium=referral&utm_source=unsplash\">xxxx\u003C/a>\u003C/small>\n\u003C/div>\n \n\nNote: \n\nHow-to\n - **How:** Search engines: searchcode.com\" or \"searchcode.com\n - **Where:** Platforms and directories for open-source software, such as GitHub, GitLab, SourceForge, and Bitbucket\n - **Easy Install**: Package Mangers: make it easy to find and install open-source libraries: pip (Python), npm(Node.js), and RubyGems,(Ruby) …\n - **Under a License**: Apache, MIT, GPL, LGPL, BCD CC*\n - A software license is a legal agreement that define the terms and conditions under which software can be used, distributed, modified, and shared\n\n\nThese licenses serve to protect the rights of the software developer while also defining what users are allowed to do with the software. \nHere are some key components typically found in software licenses:\n\n1. **License Grant:** This section describes what the software license allows users to do. It may specify whether the software can be used, copied, modified, or distributed.\n\n2. **Restrictions:** These are limitations placed on the user, such as restrictions on reverse engineering, decompiling, or using the software for specific purposes.\n\n3. **Usage Terms:** This section may include usage terms, such as the number of users or devices that can use the software, the duration of the license, and whether the license is transferable.\n\n4. **Distribution:** If the software can be distributed, the license may specify the conditions under which it can be shared or sold.\n\n5. **Modification:** If users are allowed to modify the software, the license might specify the terms for sharing those modifications, including whether they must be open source or can remain proprietary.\n\n6. **Attribution:** Some licenses require users to provide attribution to the original software developer in their own work.\n\n7. **Warranty and Liability:** This section outlines the warranty, if any, provided with the software. It may also specify the extent of liability of the software developer for any damages or issues arising from the software's use.\n\n8. **Termination:** The license may include conditions under which it can be terminated, such as non-compliance with the license terms.\n\n9. **Governing Law:** This indicates which jurisdiction's laws will govern the license agreement.\n\nCommon types of software licenses include open source licenses like the MIT License, Apache License, and GNU General Public License (GPL), as well as proprietary licenses used for commercial software. Each type of license comes with its own set of terms and conditions, ranging from highly permissive (e.g., MIT License) to more restrictive (e.g., some proprietary licenses).\n\nIt's essential to carefully read and understand the terms of a software license before using or distributing the software, as violation of the license terms can have legal consequences. Additionally, some licenses are not compatible with one another, so it's crucial to ensure that the software's licenses align with your intended use and distribution.\n\n\n===\n\n\u003C!-- .slide: data-state=\"standard\" -->\n\n## Programming \n\n\n There are several programming paradigms, which are different approaches to writing code and structuring programs\n\n\u003Cdiv style=\"width: 50%; float: left\">\n\n- Procedural Programming\n - Object-Oriented Programming \n - Functional Programming \n - Declarative Programming\n - Logic Programming\n - Concurrent and Parallel Programming\n - Event-Driven Programming\n\u003C/div>\n\n\u003Cdiv style=\"width: 50%; float: right\">\n\u003Cimg src=\"media/STEM-Research-software-writing12.png\" width=\"100%\">\n\u003C/div>\n\n\u003Cdiv style=\"float: left; clear: both; padding-left: 35%; padding-top: 3em\">\n\u003Csmall>Photo by \u003Ca href=\"https://unsplash.com/@stephaniemoarr?utm_content=creditCopyText&utm_medium=referral&utm_source=unsplash\">xxxx\u003C/a> on \u003Ca href=\"https://unsplash.com/photos/person-holding-white-ceramic-mug-DGt9zA3Fr0g?utm_content=creditCopyText&utm_medium=referral&utm_source=unsplash\">xxxx\u003C/a>\u003C/small>\n\u003C/div>\n\nNote: \n\n- Don’t get into religious programming discussion and attitude.\n- Choose based on what fits best\n - Expressiveness\n - Ease of use\n - Eco-systems (libraries, tools for debugging, community)\n- Imperative Programming: In imperative programming, you provide explicit instructions for the computer to follow, specifying the sequence of steps to achieve a particular result. Languages like C, C++, and Pascal are often associated with this paradigm.\n- Procedural Programming: Procedural programming is a subset of imperative programming where code is organized into procedures or functions. It promotes code reusability and maintainability. C and Pascal are examples of languages that support procedural programming.\n- Object-Oriented Programming (OOP): In OOP, programs are structured around objects, which encapsulate data and behavior. Key concepts include classes, inheritance, and polymorphism. Java, C++, and Python are popular OOP languages.\n- Functional Programming (FP): Functional programming treats computation as the evaluation of mathematical functions and avoids changing state and mutable data. It relies heavily on functions as first-class citizens. Languages like Haskell, Lisp, and Erlang are associated with this paradigm.\n- Declarative Programming: In declarative programming, you specify what you want to achieve without detailing how it should be done. SQL, for example, is a declarative language used for querying databases.\n- Logic Programming: Logic programming is based on formal logic and rule-based systems. Prolog is a well-known logic programming language used for symbolic reasoning and knowledge representation.\n- Event-Driven Programming: This paradigm is common in GUI programming and systems where code responds to events or messages. Event-driven languages include JavaScript and Python (with libraries like Tkinter).\nAspect-Oriented Programming (AOP): AOP is a complement to OOP. It focuses on separating cross-cutting concerns (e.g., logging, security) from the main program logic. AspectJ is a popular AOP extension for Java.\n- Concurrent and Parallel Programming: These paradigms address multi-threading, parallel processing, and synchronization. Languages like Go, Erlang, and Java provide features for concurrent and parallel programming.\n- Meta-Programming: Meta-programming is a programming technique where code generates, modifies, or analyzes other code. It's often used in code generation and domain-specific languages.\n- Scripting: Scripting languages are designed for quick, dynamic, and interpreted scripting tasks. Python, Ruby, and - JavaScript are scripting languages commonly used for automation and web development.\n- Array Programming: Array programming emphasizes operations on entire arrays rather than individual elements. Languages like MATLAB and NumPy (Python library) support array programming.\n- Reactive Programming\n\n===\n\n\u003C!-- .slide: data-state=\"standard\" -->\n\n\n## Programming Languages\n\n\u003C!-- ![](media/STEM-Research-software-writing13.jpg)-->\n\n\u003Cdiv style=\"width: 50%; float: left\">\n\nDon’t get into religious programming discussion and attitude\\.\n- Choose based on what fits best\n - Expressiveness\n - Ease of use\n - Eco-systems (libraries, tools for debugging, community)\n\n \u003C/div>\n\n\u003Cdiv style=\"width: 50%; float: right\">\n\u003Cimg src=\"media/STEM-Research-software-writing14.jpg\" width=\"100%\">\n\u003C/div>\n\u003Cdiv style=\"float: left; clear: both; padding-left: 35%; padding-top: 3em\">\n\u003Csmall>Photo by \u003Ca href=\"https://unsplash.com/@stephaniemoarr?utm_content=creditCopyText&utm_medium=referral&utm_source=unsplash\">xxxx\u003C/a> on \u003Ca href=\"https://unsplash.com/photos/person-holding-white-ceramic-mug-DGt9zA3Fr0g?utm_content=creditCopyText&utm_medium=referral&utm_source=unsplash\">xxxx\u003C/a>\u003C/small>\n\u003C/div>\n\nNote: \n\n[https://en.wikipedia.org/wiki/Comparison_of_multi-paradigm_programming_languages](https://en.wikipedia.org/wiki/Comparison_of_multi-paradigm_programming_languages) \n\n===\n\n\u003C!-- .slide: data-state=\"standard\" -->\n\n## Software Architecture\n\n\u003Cdiv style=\"width: 50%; float: left\">\n\nDesign\n- Functional vs Non-functional requirements\n- Architecture style\n- Component design\n- Software patterns\n- Scalability\n- Security Performance\n- Deployment and hosting\n- Monitoring and logging\n- Compliance and standards\n- Change management\n- Review and validation\n\u003C/div>\n\n\u003Cdiv style=\"width: 50%; float: right\">\n\u003Cimg src=\"media/STEM-Research-software-writing15.jpg\" width=\"100%\">\n\u003C/div>\n\u003Cdiv style=\"float: left; clear: both; padding-left: 35%; padding-top: 3em\">\n\u003Csmall>Photo by \u003Ca href=\"https://unsplash.com/@stephaniemoarr?utm_content=creditCopyText&utm_medium=referral&utm_source=unsplash\">xxxx\u003C/a> on \u003Ca href=\"https://unsplash.com/photos/person-holding-white-ceramic-mug-DGt9zA3Fr0g?utm_content=creditCopyText&utm_medium=referral&utm_source=unsplash\">xxxx\u003C/a>\u003C/small>\n\u003C/div>\u003C!-- ![](media/STEM-Research-software-writing16.jpg) -->\n\nNote:\n - Use appropriate Tools:\n - provide features for creating architectural diagrams, defining components, and visualizing the structure of a software system\n\n[https://softwarearchitecture.tools/#diagramming-tools](https://softwarearchitecture.tools/#diagramming-tools)\n\n\u003C!-- ![](media/STEM-Research-software-writing17.jpg) --> \n\n===\n\n\u003C!-- .slide: data-state=\"standard\" -->\n\n# Software engineering best practices\n\n\n\u003Cdiv style=\"width: 50%; float: left\">\n\n- Modular and Scalable Design\n- Version control\n- Coding Standards (Readability/code formatting)\n- Test-Driven Development\n- Code Reviews\n- continuous Integration (CI) and Continuous Delivery (CD)\n- Bug Tracking and Issue Management\n- Security Practices\n- Performance Optimization\n- User Experience (UX) and Usability\n- Documentation\n\u003C/div>\n\n\u003Cdiv style=\"width: 50%; float: right\">\n\u003Cimg src=\"media/STEM-Research-software-writing17.jpg\" width=\"100%\">\n\u003C/div>\n\n\nNote:\n\nUse of Integrated Development Environment (IDE)\n\nhttps://sourceforge\\.net/directory/integrated\\-development\\-environments\\-ide/mac/\n\n===\n\n\u003C!-- .slide: data-state=\"standard\" -->\n\n## DevOpsTeam development\n\n\u003Cdiv style=\"width: 50%; float: left\">\n\n- DevOps foster a culture of collaboration and continuous improvement\n - practices, principles enhance collaboration and communication between software development and IT operations teams\n- The primary objective is to\n - increase the speed, quality, and reliability\n - Continuous integration (CI)\n - Monitoring and Feedback\n - Security\n - Microservices and containers\n - Scalability and Resilience\n - DevOps toolchain\n\u003C/div>\n\u003Cdiv style=\"width:50%; float: right\">\n\u003Cimg src=\"media/STEM-Research-software-writing18.png\" width=\"100%\">\n\u003C/div>\n\nNote:\n\n- DevOpsis not a one-size-fits-all approach, and its implementation can vary depending on an organization's specific needs and constraints.The primary objective is to increase the speed, quality, and reliability of software delivery\n\n===\n\n\u003C!-- .slide: data-state=\"standard\" -->\n\n## Reusability of Research software\n\n\n\u003Cdiv style=\"width: 50%; float: left\">\n\n- Does following SE best practices guarantee re-usability and user adoption?\n - it should in increase adoption,\n - Beyond FAIR\n\u003C/div>\n\u003Cdiv style=\"width:50%; float: right\">\n\u003Cimg src=\"media/STEM-Research-software-writing19.jpg\" width=\"100%\">\n\u003C/div>\n\n\nNote:\n\n- Identify\n - the competition\n - the Unique seling point\n- Reach out potential\n - Tutorials/demos/papers\n- Dont forget to make the software repository public\n\n===\n\n\u003C!-- .slide: data-state=\"standard\" -->\n\n## Takeaway\n\n\u003Cdiv style=\"width: 50%; float: left\">\n\n- Developing a software is\n - a long and tedious process\n - it worth to defend and sustaining but not at all costs\n- Suggestions: \n - Don’t fall in Love with your software When needed drop it and use another solution\n\u003C/div>\n\u003Cdiv style=\"width:50%; float: right\">\n\u003Cimg src=\"media/STEM-Research-software-writing20.png\" width=\"100%\">\n\u003C/div>\n\n===\n\n\u003C!-- .slide: data-state=\"keepintouch\" -->\n\nwww.esciencecenter.nl\n\ninfo@esciencecenter.nl\n \n020 - 460 47 70 \n",[1679,1714],{"_path":1680,"_dir":1681,"_draft":6,"_partial":6,"_locale":7,"title":1682,"description":7,"body":1683,"_type":1672,"_id":1711,"_source":1674,"_file":1712,"_extension":1676,"plainText":1713},"/main/about","main","About",{"type":13,"children":1684,"toc":1707},[1685,1691,1696,1702],{"type":16,"tag":29,"props":1686,"children":1688},{"id":1687},"about-this-lessonproject",[1689],{"type":22,"value":1690},"About this lesson/project",{"type":16,"tag":24,"props":1692,"children":1693},{},[1694],{"type":22,"value":1695},"Provide details about the project and lesson.",{"type":16,"tag":29,"props":1697,"children":1699},{"id":1698},"target-audience",[1700],{"type":22,"value":1701},"Target audience",{"type":16,"tag":24,"props":1703,"children":1704},{},[1705],{"type":22,"value":1706},"Define target audience for this 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eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

Teaching Material

Teaching material

  • How to Do Code Reviews Like a Human PyGotham2018
  • Amazing Code Reviews: Creating a Superhero Collective Talk@GOto2019
  • Code review guidelines
These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
- \ No newline at end of file +
eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

Teaching Material

Teaching material

  • How to Do Code Reviews Like a Human PyGotham2018
  • Amazing Code Reviews: Creating a Superhero Collective Talk@GOto2019
  • Code review guidelines
These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

Background

Unit 2 covered only the basics of GitHub, in this Unit you will learn how to use GitHub to collaborate with your project team and beyond in an efficient and proper manner. In Unit 2 you will learn the collaboration mechanisms offered by GitHub.

These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
- \ No newline at end of file +
eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

Background

Unit 2 covered only the basics of GitHub, in this Unit you will learn how to use GitHub to collaborate with your project team and beyond in an efficient and proper manner. In Unit 2 you will learn the collaboration mechanisms offered by GitHub.

These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

Further Reading

These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
- \ No newline at end of file +
eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

Further Reading

These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

  • Understand GitHub Collaboration Mechanisms: Learners will be able to describe key GitHub collaboration features, including pull requests, branching, merging, and team workflows, and understand how to use these tools to collaborate efficiently within a project team.
  • Apply GitHub Workflow Best Practices: Learners will be able to implement GitHub workflows, such as using branches for feature development and handling pull requests, to ensure smooth collaboration and code integration across teams.
  • Understand GitHub Actions and CI/CD Pipelines
    will be able to explain the basic concepts of GitHub Actions, set up simple CI/CD pipelines, and automate testing and deployment processes to improve software delivery efficiency.
These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
- \ No newline at end of file +
eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

  • Understand GitHub Collaboration Mechanisms: Learners will be able to describe key GitHub collaboration features, including pull requests, branching, merging, and team workflows, and understand how to use these tools to collaborate efficiently within a project team.
  • Apply GitHub Workflow Best Practices: Learners will be able to implement GitHub workflows, such as using branches for feature development and handling pull requests, to ensure smooth collaboration and code integration across teams.
  • Understand GitHub Actions and CI/CD Pipelines
    will be able to explain the basic concepts of GitHub Actions, set up simple CI/CD pipelines, and automate testing and deployment processes to improve software delivery efficiency.
These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

Instructions

To learn the collaboration features of GitHub, we have selected two short videos which cover collaboration concepts in GitHub: pull request, Branching, Merging & Team Workflow [1]2. To finish off with learning GitHub, we propose a lecture which focuses on GitHub actions Basic Concepts and CI/CD Pipeline 3.

To complete Unit 2, you are expected to:

  • Read/watch the suggested teaching material
  • Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach.
  • Please send the list of questions to your coach one day before the weekly meetings..

Time expected to complete this unit: 4 hours

These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
- \ No newline at end of file +
eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

Instructions

To learn the collaboration features of GitHub, we have selected two short videos which cover collaboration concepts in GitHub: pull request, Branching, Merging & Team Workflow [1]2. To finish off with learning GitHub, we propose a lecture which focuses on GitHub actions Basic Concepts and CI/CD Pipeline 3.

To complete Unit 2, you are expected to:

  • Read/watch the suggested teaching material
  • Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach.
  • Please send the list of questions to your coach one day before the weekly meetings..

Time expected to complete this unit: 4 hours

These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

Teaching Material

Teaching material

  • Collaborative work with GitHub Online Lecture
  • GITHUB PULL REQUEST, Branching, Merging & Team Workflow onlineVideo
  • GitHub Actions Tutorial - Basic Concepts and CI/CD Pipeline Tutorial
These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
- \ No newline at end of file +
eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

Teaching Material

Teaching material

  • Collaborative work with GitHub Online Lecture
  • GITHUB PULL REQUEST, Branching, Merging & Team Workflow onlineVideo
  • GitHub Actions Tutorial - Basic Concepts and CI/CD Pipeline Tutorial
These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

Background

While using OSS libraries increases the efficiency of the developers, contributing to OSS helps them to gain a much deeper knowledge about the software, build confidence and your reputation and can leverage their career. Contributing to OSS is not only beneficial to individual developers, but also to organizations .

These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
- \ No newline at end of file +
eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

Background

While using OSS libraries increases the efficiency of the developers, contributing to OSS helps them to gain a much deeper knowledge about the software, build confidence and your reputation and can leverage their career. Contributing to OSS is not only beneficial to individual developers, but also to organizations .

These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

Further Reading

These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
- \ No newline at end of file +
eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

Further Reading

These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

  • Understand the Benefits of Contributing to Open-S: ource Software (OSS): Learners will be able to explain how contributing to OSS can deepen their knowledge of software, enhance their career opportunities, and build a professional reputation, both individually and within an organization.
  • Learn the Process of Contributing to OSS Projects: Learners will be able to outline the steps involved in contributing to OSS, including finding suitable projects, understanding community guidelines, and navigating the contribution process from identifying issues to submitting code.
  • Engage Effectively with the OSS Community: Learners will be able to demonstrate how to connect with the OSS community, communicate with project maintainers, and contribute in meaningful ways that align with the project's goals while learning from the collaborative environment.
These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
- \ No newline at end of file +
eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

  • Understand the Benefits of Contributing to Open-S: ource Software (OSS): Learners will be able to explain how contributing to OSS can deepen their knowledge of software, enhance their career opportunities, and build a professional reputation, both individually and within an organization.
  • Learn the Process of Contributing to OSS Projects: Learners will be able to outline the steps involved in contributing to OSS, including finding suitable projects, understanding community guidelines, and navigating the contribution process from identifying issues to submitting code.
  • Engage Effectively with the OSS Community: Learners will be able to demonstrate how to connect with the OSS community, communicate with project maintainers, and contribute in meaningful ways that align with the project's goals while learning from the collaborative environment.
These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

Instructions

For Unit 4, we selected three references that can help describe the process of contributing to existing Open source software. 1 is talk where the speaker shares her experience with contributing to Cucumber, including making an early mistake (merging something that was not ready yet) and fixing it with the support of core maintainers, and still feeling welcome. You will learn how to find your project and contributions to start with, how to connect with the community to make sure your contributions are useful, and the many diverse types of contributions you can make.
-To complete Unit 4, you are expected to:

  • Read/watch the suggested teaching material.
  • Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach.
  • Please send the list of questions to your coach one day before.

Important: the proposed material includes hands-on assignments. Do try them and if you encounter issues you cannot solve, do share them with your coach.

Time expected to complete this unit: 4 hours

These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
- \ No newline at end of file +To complete Unit 4, you are expected to:

  • Read/watch the suggested teaching material.
  • Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach.
  • Please send the list of questions to your coach one day before.

Important: the proposed material includes hands-on assignments. Do try them and if you encounter issues you cannot solve, do share them with your coach.

Time expected to complete this unit: 4 hours

These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

Teaching Material

  • How I Started Contributing to Open Source and Why You Should Too Talk slides
  • Complete Guide to Open Source - How to Contribute Lecture
These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
- \ No newline at end of file +
eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

Teaching Material

  • How I Started Contributing to Open Source and Why You Should Too Talk slides
  • Complete Guide to Open Source - How to Contribute Lecture
These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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eScience Internal Training
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Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

Background

For Unit 7, we selected a number of references which will help you go beyond just knowing the syntax of the language. teaching material 1 is a talk given at a conference in 2017 which goes over the common programming paradigm and explains the similarities and the differences. teaching material 2 is the first lecture of course at Stanford university which aims to teach several programming languages. -The lecture is a general introduction to the course, it stresses the intellectual value of learning a programming language which is to study the paradigm they represent, so do not focus on the details but more on how the lecturer makes the link between a language and its paradigm.

These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
- \ No newline at end of file +The lecture is a general introduction to the course, it stresses the intellectual value of learning a programming language which is to study the paradigm they represent, so do not focus on the details but more on how the lecturer makes the link between a language and its paradigm.

These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

Further Reading

These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
- \ No newline at end of file +
eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

Further Reading

These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

Unit 7 aims to raise your awareness about the fact that when you choose a programming language for your project.

  • Understand Data Preparation Techniques: Learners will be able to describe and apply basic data preparation methods, including cleaning, transforming, and organizing data for effective analysis.
  • Explore Data Storage and Access Technologies: Learners will be able to explain the principles of data storage and access, identifying suitable technologies and approaches for managing structured and unstructured data.
  • Analyze Data Using Descriptive Statistics: Learners will be able to calculate and interpret descriptive statistical measures, such as mean, median, and standard deviation, to summarize and analyze data effectively.

Note: It is advised that you develop more in-depth knowledge about the programming paradigm you will use during the project which is beyond the scope of this unit.

These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
- \ No newline at end of file +
eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

Unit 7 aims to raise your awareness about the fact that when you choose a programming language for your project.

  • Understand Data Preparation Techniques: Learners will be able to describe and apply basic data preparation methods, including cleaning, transforming, and organizing data for effective analysis.
  • Explore Data Storage and Access Technologies: Learners will be able to explain the principles of data storage and access, identifying suitable technologies and approaches for managing structured and unstructured data.
  • Analyze Data Using Descriptive Statistics: Learners will be able to calculate and interpret descriptive statistical measures, such as mean, median, and standard deviation, to summarize and analyze data effectively.

Note: It is advised that you develop more in-depth knowledge about the programming paradigm you will use during the project which is beyond the scope of this unit.

These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

Instructions

To complete Unit 7, you are expected to:

  • Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach.
  • Please send the list of questions to your coach one day before.
  • Practical hands-on for this unit are provided by the material used for eScience Center External Training program 3. You can do the hands-on individually or join a the eScience Center external workshop. Check the eScience Digital-skills for the workshops schedule, -contact the eScience Center Training to check whether there is still space for you to join.
These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
- \ No newline at end of file +contact the eScience Center Training to check whether there is still space for you to join.
These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

Teaching Material

Time expected to complete this unit: 4 hours

These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
- \ No newline at end of file +
eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

Teaching Material

Time expected to complete this unit: 4 hours

These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

Background

Data structures are fundamental concepts in computer science which have a direct impact on the performance of a program. Today, in the Big Data era, understanding the basic features of data structures is a key factor which will help you to write programs that perform well and that can scale. Often, when we propose new algorithms and implement them, we have the tendency to test the implementation on a small (toy) data set, which does not give an accurate idea on the computational complexity of these algorithms. Certain algorithms might lead to long computations time or even impossible to complete within reasonable time. A Better metric for measuring the amount of time and/or space required by an algorithm for an input of a given size (n) is the algorithm complexity.

These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
- \ No newline at end of file +
eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

Background

Data structures are fundamental concepts in computer science which have a direct impact on the performance of a program. Today, in the Big Data era, understanding the basic features of data structures is a key factor which will help you to write programs that perform well and that can scale. Often, when we propose new algorithms and implement them, we have the tendency to test the implementation on a small (toy) data set, which does not give an accurate idea on the computational complexity of these algorithms. Certain algorithms might lead to long computations time or even impossible to complete within reasonable time. A Better metric for measuring the amount of time and/or space required by an algorithm for an input of a given size (n) is the algorithm complexity.

These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

Further Reading

  • Data Structures and Algorithms, by John Bullinaria, School of Computer Science University of Birmingham Lecture Notes
  • Data Structures and Algorithms in Python? by freeCodeCamp.org online course
These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
- \ No newline at end of file +
eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

Further Reading

  • Data Structures and Algorithms, by John Bullinaria, School of Computer Science University of Birmingham Lecture Notes
  • Data Structures and Algorithms in Python? by freeCodeCamp.org online course
These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

after completing unit 3 you will have acquired a basic understanding of the various data structures and will be able to make an informed decision about the data structure you will be using in your projects.

  • Understand the Role of Data Structures in Performance: Learners will be able to explain how the choice of data structures impacts the performance and scalability of programs.
  • Evaluate Algorithm Performance with Complexity Analysis: Learners will be basic understanding of the computational complexity of algorithms using Big-O notation.
These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
- \ No newline at end of file +
eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

after completing unit 3 you will have acquired a basic understanding of the various data structures and will be able to make an informed decision about the data structure you will be using in your projects.

  • Understand the Role of Data Structures in Performance: Learners will be able to explain how the choice of data structures impacts the performance and scalability of programs.
  • Evaluate Algorithm Performance with Complexity Analysis: Learners will be basic understanding of the computational complexity of algorithms using Big-O notation.
These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

Instructions

To complete Unit 3, you are expected to:

Watch the suggested teaching material.

Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach.

Please send the list of questions to your coach one day before.

Important: In this unit the proposed material teaching material 1 contains some hands-on assignments. It is crucial to pause the video and perform the hands-on work on your laptop.

Time expected to complete this unit: 7 hours

These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
- \ No newline at end of file +
eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

Instructions

To complete Unit 3, you are expected to:

Watch the suggested teaching material.

Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach.

Please send the list of questions to your coach one day before.

Important: In this unit the proposed material teaching material 1 contains some hands-on assignments. It is crucial to pause the video and perform the hands-on work on your laptop.

Time expected to complete this unit: 7 hours

These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

Teaching Material

Data structure, Algorithms, sorting & searching, freeCodeCamp.org Course

These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
- \ No newline at end of file +
eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

Teaching Material

Data structure, Algorithms, sorting & searching, freeCodeCamp.org Course

These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

Background

Millions of developers and companies build, ship, and maintain their software on GitHub — the largest and most advanced development platform in the world. At the eScience center GitHub is the main instrument used during the development of all projects, as an RSE at the center you will be using GitHub day in day out in your work. It is thus crucial that you learn the basics of GitHub as soon as possible to become operational and effective.

These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
- \ No newline at end of file +
eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

Background

Millions of developers and companies build, ship, and maintain their software on GitHub — the largest and most advanced development platform in the world. At the eScience center GitHub is the main instrument used during the development of all projects, as an RSE at the center you will be using GitHub day in day out in your work. It is thus crucial that you learn the basics of GitHub as soon as possible to become operational and effective.

These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

Further Reading

These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
- \ No newline at end of file +
eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

Further Reading

These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

  • Understand the Basics of GitHub: Learners will be able to explain the fundamental concepts of GitHub, including version control, repositories, and the basic Git commands such as commit, add, and push, which are essential for day-to-day development tasks.
  • Apply GitHub for Collaborative Software Development: Learners will be able to use GitHub effectively for collaborative projects, understanding how to manage repositories, contribute to shared codebases, and track changes through commits and branches.
  • Navigate and Utilize GitHub Learning Resources: Learners will be able to leverage official GitHub documentation, GitHub Learning Lab, and other tutorials to enhance their GitHub skills and troubleshoot common issues, becoming more efficient in using GitHub for their development work.
These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
- \ No newline at end of file +
eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

  • Understand the Basics of GitHub: Learners will be able to explain the fundamental concepts of GitHub, including version control, repositories, and the basic Git commands such as commit, add, and push, which are essential for day-to-day development tasks.
  • Apply GitHub for Collaborative Software Development: Learners will be able to use GitHub effectively for collaborative projects, understanding how to manage repositories, contribute to shared codebases, and track changes through commits and branches.
  • Navigate and Utilize GitHub Learning Resources: Learners will be able to leverage official GitHub documentation, GitHub Learning Lab, and other tutorials to enhance their GitHub skills and troubleshoot common issues, becoming more efficient in using GitHub for their development work.
These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

Instructions

When it comes to GitHub there is plenty of online material which can help you to learn how to use GitHub starting from the official GitHub documentation 1 or the GitHub learning Lab 2 a bot which will take you through a series of practical projects to learn to complete Tutorial/courses for beginners 3 4. 3 is one 1-hour Crash Course for beginners, it explains the most GitHub commands you need to know about to start using GitHub (commit, add, push …) the course shows life demos of the GitHub commands covered in the courses. 4 is very similar to 3 but it is structured as a set of short videos covering various GitHub commands

To complete Unit 1, you are expected to:

  • Read/watch the suggested teaching material
  • Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach.
  • Please send the list of questions to your coach one day before the weekly meetings..

Time expected to complete this unit: 4 hours

These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
- \ No newline at end of file +
eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

Instructions

When it comes to GitHub there is plenty of online material which can help you to learn how to use GitHub starting from the official GitHub documentation 1 or the GitHub learning Lab 2 a bot which will take you through a series of practical projects to learn to complete Tutorial/courses for beginners 3 4. 3 is one 1-hour Crash Course for beginners, it explains the most GitHub commands you need to know about to start using GitHub (commit, add, push …) the course shows life demos of the GitHub commands covered in the courses. 4 is very similar to 3 but it is structured as a set of short videos covering various GitHub commands

To complete Unit 1, you are expected to:

  • Read/watch the suggested teaching material
  • Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach.
  • Please send the list of questions to your coach one day before the weekly meetings..

Time expected to complete this unit: 4 hours

These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

Teaching Material

These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
- \ No newline at end of file +
eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

Teaching Material

These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

Background

Solving the technical aspects is not enough to build reliable, enduring, resilient software and systems. Human aspects are also vital to the successful completion of a software project. Human factors are nowadays part of mainstream software engineering education to elevate job satisfaction, improve performance, and increase productivity of software engineers. In Unit 2, we spend some time to reflect on these factors and their impact on the daily work of RSEs at the eScience center.

These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
- \ No newline at end of file +
eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

Background

Solving the technical aspects is not enough to build reliable, enduring, resilient software and systems. Human aspects are also vital to the successful completion of a software project. Human factors are nowadays part of mainstream software engineering education to elevate job satisfaction, improve performance, and increase productivity of software engineers. In Unit 2, we spend some time to reflect on these factors and their impact on the daily work of RSEs at the eScience center.

These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

Further Reading

These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
- \ No newline at end of file +
eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

Further Reading

These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

  • Recognize the Impact of Human Factors on Software Development: Learners will be able to identify key human factors that influence the success of software projects, including communication, culture, and team dynamics, and understand how these factors affect both performance and productivity.
  • Address Conflicts and Culture Clashes in Software Teams: Learners will be able to recognize and address potential conflicts and culture clashes within software development teams, using strategies to minimize tension and foster a collaborative and productive working environment.
  • Enhance Personal Performance and Well-being in Software Engineering: Learners will be able to apply principles from Human Software Engineering to improve their own performance, manage stress, and optimize their working environment, ensuring long-term success and job satisfaction.
These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
- \ No newline at end of file +
eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

  • Recognize the Impact of Human Factors on Software Development: Learners will be able to identify key human factors that influence the success of software projects, including communication, culture, and team dynamics, and understand how these factors affect both performance and productivity.
  • Address Conflicts and Culture Clashes in Software Teams: Learners will be able to recognize and address potential conflicts and culture clashes within software development teams, using strategies to minimize tension and foster a collaborative and productive working environment.
  • Enhance Personal Performance and Well-being in Software Engineering: Learners will be able to apply principles from Human Software Engineering to improve their own performance, manage stress, and optimize their working environment, ensuring long-term success and job satisfaction.
These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

Instructions

For Unit 2, we selected three references which highlight the human aspect of Software engineering and their impact on your research project. 1 is talk given at The Lead Developer UK conference 2017, it explains potential conflicts that can arise during software development. Culture clashes can cause quite a bit of tension and frustration and could hamper the progress of the project. 2 is a lecture on Human Software Engineering explains how to survive, optimize performance, and thrive in the modern working environment. 3 is a podcast roundtable discussing the human factors that impact software engineering, from communication tools they use to the environment that they work.

To complete Unit 2, you are expected to:

  • Read/watch the suggested teaching material.
  • Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach.
  • Please send the list of questions to your coach one day before.

Important: the proposed material includes hands-on assignments. Do try them and if you encounter issues you cannot solve, do share them with your coach.

Time expected to complete this unit: 4 hours

These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
- \ No newline at end of file +
eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

Instructions

For Unit 2, we selected three references which highlight the human aspect of Software engineering and their impact on your research project. 1 is talk given at The Lead Developer UK conference 2017, it explains potential conflicts that can arise during software development. Culture clashes can cause quite a bit of tension and frustration and could hamper the progress of the project. 2 is a lecture on Human Software Engineering explains how to survive, optimize performance, and thrive in the modern working environment. 3 is a podcast roundtable discussing the human factors that impact software engineering, from communication tools they use to the environment that they work.

To complete Unit 2, you are expected to:

  • Read/watch the suggested teaching material.
  • Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach.
  • Please send the list of questions to your coach one day before.

Important: the proposed material includes hands-on assignments. Do try them and if you encounter issues you cannot solve, do share them with your coach.

Time expected to complete this unit: 4 hours

These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

Teaching Material

  • Cultural Differences Affect the Social Aspect of Software Engineering Conferenc
  • Tom Stone - Human Software Engineering OnlineLecture
  • Human Factors in Software Engineering, Carnegie Mellon University Podcast
These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
- \ No newline at end of file +
eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

Teaching Material

  • Cultural Differences Affect the Social Aspect of Software Engineering Conferenc
  • Tom Stone - Human Software Engineering OnlineLecture
  • Human Factors in Software Engineering, Carnegie Mellon University Podcast
These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

Background

While it is strongly suggested to use open-source libraries and frameworks, often open-source libraries and frameworks are distributed under licenses that are specifically designed to prevent certain type of usage for example using them in closed-source software. It is important to understand how different types of open-source and free software licenses work, and how you can use them in your research projects at the center. It is important to note here that the licensing policy of the center is to release all software under the Apache 2 license. In Unit 5 we look at what a few of the different licenses are, and how they work.

These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
- \ No newline at end of file +
eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

Background

While it is strongly suggested to use open-source libraries and frameworks, often open-source libraries and frameworks are distributed under licenses that are specifically designed to prevent certain type of usage for example using them in closed-source software. It is important to understand how different types of open-source and free software licenses work, and how you can use them in your research projects at the center. It is important to note here that the licensing policy of the center is to release all software under the Apache 2 license. In Unit 5 we look at what a few of the different licenses are, and how they work.

These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

Further Reading

These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
- \ No newline at end of file +
eScience Internal Training
Modules AboutContribute
Netherlands eScience Center LogoNetherlands eScience Center Logo

No Title

Further Reading

These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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eScience Internal Training
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  • Understand the Value and Impact of Open-Source Software Licenses: Learners will be able to describe the fundamental values of open-source software and explain how licensing can affect the usage, distribution, and contribution to projects.
  • Identify the Different Types of Open-Source Licenses: Learners will be able to distinguish between the three main types of open-source licenses, understand their key differences, and determine which license is appropriate for different types of projects. -Select the Appropriate License for Your Research Projects
  • Learners will be able to navigate through various licensing options and choose the most suitable open-source license, such as Apache 2, for their software based on project needs and center policies.
These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
- \ No newline at end of file +Select the Appropriate License for Your Research Projects
  • Learners will be able to navigate through various licensing options and choose the most suitable open-source license, such as Apache 2, for their software based on project needs and center policies.
    • These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Instructions

    For Unit 5, we selected three references that can help learn about the most common open-source licenses and which one to choose for different situations. 1 is presentation that walks through the values of creating open-source software and how to select which type of open-source license is right for your project. You will learn three fundamental lessons: (1) The value that open-source software provides to the world. (2) An understanding of the differences between the three (3) main types of open-source licenses available. (3) Steps to follow to select the right open-source license for your project. 2 is an online document from the Open source's initiative, it will walk you through all the popular licenses. Finally 3 will help you to choose the licenses depending on your situation.

    It also is essential that you read the Netherlands eScience Center policy towards publishing, licensing and Intellectual Property, as well as our IP rules for eScience Center projects. You can find the general eScience Center policy towards publishing, licensing and intellectual property here. For eScience Center projects, we have a more specific set of IP rules. They can be hound here

    To complete Unit 5, you are expected to:

    • Read/watch the suggested teaching material.
    • Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach.
    • Please send the list of questions to your coach one day before.

    Important: the proposed material includes hands-on assignments. Do try them and if you encounter issues you cannot solve, do share them with your coach.

    Time expected to complete this unit: 4 hours

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
    - \ No newline at end of file +
    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Instructions

    For Unit 5, we selected three references that can help learn about the most common open-source licenses and which one to choose for different situations. 1 is presentation that walks through the values of creating open-source software and how to select which type of open-source license is right for your project. You will learn three fundamental lessons: (1) The value that open-source software provides to the world. (2) An understanding of the differences between the three (3) main types of open-source licenses available. (3) Steps to follow to select the right open-source license for your project. 2 is an online document from the Open source's initiative, it will walk you through all the popular licenses. Finally 3 will help you to choose the licenses depending on your situation.

    It also is essential that you read the Netherlands eScience Center policy towards publishing, licensing and Intellectual Property, as well as our IP rules for eScience Center projects. You can find the general eScience Center policy towards publishing, licensing and intellectual property here. For eScience Center projects, we have a more specific set of IP rules. They can be hound here

    To complete Unit 5, you are expected to:

    • Read/watch the suggested teaching material.
    • Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach.
    • Please send the list of questions to your coach one day before.

    Important: the proposed material includes hands-on assignments. Do try them and if you encounter issues you cannot solve, do share them with your coach.

    Time expected to complete this unit: 4 hours

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Teaching Material

    • How to Choose an Open-Source License Talk@HackBeanpot 2018
    • Open-Source Licenses OnlineDoc
    • Choose a license OnlineDoc
    • eScience Center policy towards publishing, licensing and intellectual property QI
    • IP rules for eScience Center projects QI
    • The turing way Licensing-softwareonlineDoc
    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
    - \ No newline at end of file +
    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Teaching Material

    • How to Choose an Open-Source License Talk@HackBeanpot 2018
    • Open-Source Licenses OnlineDoc
    • Choose a license OnlineDoc
    • eScience Center policy towards publishing, licensing and intellectual property QI
    • IP rules for eScience Center projects QI
    • The turing way Licensing-softwareonlineDoc
    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Background

    Modular programming originated back in the 1960s when developers began breaking up larger software programs into smaller parts. Although this concept has been around for six decades, it is still extremely relevant and useful for today’s software developers, and one of the key programming principles. At the eScience center, we really encourage modularity in all our software development projects as it helps the center to increase re-usability across projects and cross scientific disciplines, which is a key to the eScience domain as a whole.

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
    - \ No newline at end of file +
    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Background

    Modular programming originated back in the 1960s when developers began breaking up larger software programs into smaller parts. Although this concept has been around for six decades, it is still extremely relevant and useful for today’s software developers, and one of the key programming principles. At the eScience center, we really encourage modularity in all our software development projects as it helps the center to increase re-usability across projects and cross scientific disciplines, which is a key to the eScience domain as a whole.

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Further Reading

    • Modularity in Software: A Retrospective by Dean Wampler: conferenceTalk
    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
    - \ No newline at end of file +
    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Further Reading

    • Modularity in Software: A Retrospective by Dean Wampler: conferenceTalk
    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    • after completing Unit 1 you will have learned -
      • the basics of reproducible research
      • the basics of project design
      • some important eScience best practices.

    Note: Unit 1 does not involve practical hands-on; after completing Unit 1 you will have learned some of basics of modular programming and you should be able to apply the principle you have learned in this unit in your research projects.

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
    - \ No newline at end of file +
    • the basics of reproducible research
    • the basics of project design
    • some important eScience best practices.

    Note: Unit 1 does not involve practical hands-on; after completing Unit 1 you will have learned some of basics of modular programming and you should be able to apply the principle you have learned in this unit in your research projects.

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Instructions

    For Unit 1, we selected a couple of references which will help you to develop a good understanding of the principles of modular design. 1 is a talk published by Oracle learning and gives a good overview of software modularity and architectures. 2 is the first lecture of course at University of Verginia, it explains many concepts on modular design what are the qualities of good modules, metrics of module quality-cohesion and coupling. 3 is a retrospective talk on the modularity theme, it includes a brief history of software modularity since its introduction, why it is useful and the good and the bad of modularity over its evolution. 3 is proposed as a further reading (extra-material) for RSE who want to reflect deeper on the software modularity. Similarly, reference 4 is extra-material focusing on Cohesion and coupling in python.

    To complete Unit 1, you are expected to:

    • Read/watch the suggested teaching material
    • Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach.
    • Please send the list of questions to your coach one day before the weekly meetings..

    Time expected to complete this unit: 4 hours

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
    - \ No newline at end of file +
    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Instructions

    For Unit 1, we selected a couple of references which will help you to develop a good understanding of the principles of modular design. 1 is a talk published by Oracle learning and gives a good overview of software modularity and architectures. 2 is the first lecture of course at University of Verginia, it explains many concepts on modular design what are the qualities of good modules, metrics of module quality-cohesion and coupling. 3 is a retrospective talk on the modularity theme, it includes a brief history of software modularity since its introduction, why it is useful and the good and the bad of modularity over its evolution. 3 is proposed as a further reading (extra-material) for RSE who want to reflect deeper on the software modularity. Similarly, reference 4 is extra-material focusing on Cohesion and coupling in python.

    To complete Unit 1, you are expected to:

    • Read/watch the suggested teaching material
    • Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach.
    • Please send the list of questions to your coach one day before the weekly meetings..

    Time expected to complete this unit: 4 hours

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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    No Title

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    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Background

    It seems obvious, but code is not only written for machines: it is written for people, too. Overlooking this fact can cause problems. Literate programming is an approach to programming in which the code is explained using natural language alongside the source code. This is distinct from related practices such as documentation or code comments; there, the code is primary, with commentary and explanation being secondary. In literate programming, however, explanation has equal billing with the code itself. A “notebook” environment is one genre of literate programming tools that is supported by many data-centric literate programming tools such as Jupyter Notebooks, Mathematica, Databricks, Apache Zeppelin, and Sage Notebooks.

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
    - \ No newline at end of file +
    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Background

    It seems obvious, but code is not only written for machines: it is written for people, too. Overlooking this fact can cause problems. Literate programming is an approach to programming in which the code is explained using natural language alongside the source code. This is distinct from related practices such as documentation or code comments; there, the code is primary, with commentary and explanation being secondary. In literate programming, however, explanation has equal billing with the code itself. A “notebook” environment is one genre of literate programming tools that is supported by many data-centric literate programming tools such as Jupyter Notebooks, Mathematica, Databricks, Apache Zeppelin, and Sage Notebooks.

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Further Reading

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
    - \ No newline at end of file +
    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Further Reading

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    • Understand the Concept of Literate Programming: Learners will be able to explain the principles of literate programming, including how it differs from traditional code documentation, and articulate its importance in making code more understandable for humans.
    • Appreciate the Role of Notebooks in Data-Centric Workflows: Learners will be able to describe the advantages of using notebook environments like Jupyter Notebooks, Mathematica, and Apache Zeppelin for combining code with explanatory narratives in data science workflows.
    • Adopt a Literate Programming Mindset: Learners will be able to integrate literate programming techniques into their coding practice, focusing on balancing natural language explanations with source code, inspired by Donald Knuth’s and other talks on the subject.
    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
    - \ No newline at end of file +
    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    • Understand the Concept of Literate Programming: Learners will be able to explain the principles of literate programming, including how it differs from traditional code documentation, and articulate its importance in making code more understandable for humans.
    • Appreciate the Role of Notebooks in Data-Centric Workflows: Learners will be able to describe the advantages of using notebook environments like Jupyter Notebooks, Mathematica, and Apache Zeppelin for combining code with explanatory narratives in data science workflows.
    • Adopt a Literate Programming Mindset: Learners will be able to integrate literate programming techniques into their coding practice, focusing on balancing natural language explanations with source code, inspired by Donald Knuth’s and other talks on the subject.
    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Instruction

    For Unit 4, we selected a couple of references which will help to motivate you to see the importance of literate programming and Notebooks. 1 is a very short video of Donald Knuth about the importance of Literature programming. 2 is a longer talk which stresses further the importance of literate programming and promotes a mind shift from documenting code to writing a book. The last reference is focused on the usage of notebooks in Data Science.

    To complete Unit 4, you are expected to:

    • Read/watch the suggested teaching material
    • Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach.
    • Please send the list of questions to your coach one day before the weekly meetings..

    Time expected to complete this unit: 4 hours

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
    - \ No newline at end of file +
    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Instruction

    For Unit 4, we selected a couple of references which will help to motivate you to see the importance of literate programming and Notebooks. 1 is a very short video of Donald Knuth about the importance of Literature programming. 2 is a longer talk which stresses further the importance of literate programming and promotes a mind shift from documenting code to writing a book. The last reference is focused on the usage of notebooks in Data Science.

    To complete Unit 4, you are expected to:

    • Read/watch the suggested teaching material
    • Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach.
    • Please send the list of questions to your coach one day before the weekly meetings..

    Time expected to complete this unit: 4 hours

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Teaching Material

    • Donald Knuth - Literate programming origine
    • Literate Programming in the Large Keynote
    • iStory in the Notebook: Data Science using Literate Programming …conferenceTalk, paper
    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
    - \ No newline at end of file +
    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Teaching Material

    • Donald Knuth - Literate programming origine
    • Literate Programming in the Large Keynote
    • iStory in the Notebook: Data Science using Literate Programming …conferenceTalk, paper
    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Background

    Reproducibility of research requires that research data and code be made available so that others can reach the results published in scientific outputs. Improving reproducibility leads to increased rigour and quality of scientific outputs, and thus to greater trust in science. There has been a growing need and willingness to expose research workflows lifecycle from initiation of a project and data collection right through to the interpretation and reporting of results. These developments have come with their own sets of challenges, including designing integrated research workflows that can be adopted by collaborators while maintaining high standards of integrity.

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
    - \ No newline at end of file +
    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Background

    Reproducibility of research requires that research data and code be made available so that others can reach the results published in scientific outputs. Improving reproducibility leads to increased rigour and quality of scientific outputs, and thus to greater trust in science. There has been a growing need and willingness to expose research workflows lifecycle from initiation of a project and data collection right through to the interpretation and reporting of results. These developments have come with their own sets of challenges, including designing integrated research workflows that can be adopted by collaborators while maintaining high standards of integrity.

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Further Reading

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
    - \ No newline at end of file +
    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Further Reading

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    • Understand the Importance of Reproducibility in Research: Learners will be able to explain the role of reproducibility in enhancing the rigor, transparency, and trustworthiness of scientific research, and the importance of making research data and code accessible for others to validate and replicate results.
    • Explore Open Science Practices for Research Workflows: Learners will be able to describe key principles of Open Science and how they can be applied to design and share integrated research workflows, ensuring that research practices are transparent, accessible, and reproducible.
    • Contribute to Open-Source Projects and Research Communities
      will be able to engage with open-source research communities, identifying opportunities for contribution and applying best practices to contribute meaningfully while maintaining high standards of integrity and collaboration.
    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
    - \ No newline at end of file +
    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    • Understand the Importance of Reproducibility in Research: Learners will be able to explain the role of reproducibility in enhancing the rigor, transparency, and trustworthiness of scientific research, and the importance of making research data and code accessible for others to validate and replicate results.
    • Explore Open Science Practices for Research Workflows: Learners will be able to describe key principles of Open Science and how they can be applied to design and share integrated research workflows, ensuring that research practices are transparent, accessible, and reproducible.
    • Contribute to Open-Source Projects and Research Communities
      will be able to engage with open-source research communities, identifying opportunities for contribution and applying best practices to contribute meaningfully while maintaining high standards of integrity and collaboration.
    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Instructions

    For Unit 3, we selected three references which cover two important topics at the center: Open Science and reproducible research. 3 is talk where the speaker shares her experience with contributing to Cucumber, including making an early mistake (merging something that was not ready yet) and fixing it with the support of core maintainers, and still feeling welcome. You will learn how to find your project and contributions to start with, how to connect with the community to make sure your contributions are useful, and the many diverse types of contributions you can make.

    To complete Unit 3, you are expected to:

    • Read/watch the suggested teaching material.
    • Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach.
    • Please send the list of questions to your coach one day before.

    Important: the proposed material includes hands-on assignments. Do try them and if you encounter issues you cannot solve, do share them with your coach.

    Time expected to complete this unit: 4 hours

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
    - \ No newline at end of file +
    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Instructions

    For Unit 3, we selected three references which cover two important topics at the center: Open Science and reproducible research. 3 is talk where the speaker shares her experience with contributing to Cucumber, including making an early mistake (merging something that was not ready yet) and fixing it with the support of core maintainers, and still feeling welcome. You will learn how to find your project and contributions to start with, how to connect with the community to make sure your contributions are useful, and the many diverse types of contributions you can make.

    To complete Unit 3, you are expected to:

    • Read/watch the suggested teaching material.
    • Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach.
    • Please send the list of questions to your coach one day before.

    Important: the proposed material includes hands-on assignments. Do try them and if you encounter issues you cannot solve, do share them with your coach.

    Time expected to complete this unit: 4 hours

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Teaching Material

    • Open Science and Reproducible Research OnlineTalk
    • An Introduction to Reproducible Research Practices WorkshopTalk
    • WHAT IS OPEN SCIENCE? | An introduction series to open science Webinar
    • Reproducibility and Open Science OnlineTalk
    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
    - \ No newline at end of file +
    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Teaching Material

    • Open Science and Reproducible Research OnlineTalk
    • An Introduction to Reproducible Research Practices WorkshopTalk
    • WHAT IS OPEN SCIENCE? | An introduction series to open science Webinar
    • Reproducibility and Open Science OnlineTalk
    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Background

    It is common for developers to use open-source libraries and frameworks: open-source software is freely available, often robust, and flexible. Using OSS libraries makes the developer’s work easier avoiding the developers starting each time from scratch which is inefficient (long time to reach a stable software release) and lead to duplication of effort. One of the first tasks of RSE at the eScience center is to identify potential OSS libraries and use them appropriately. In Unit 1, we cover the basics of OSS libraries which hopefully will help you to make well-informed decisions about OSS libraries in your projects.

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
    - \ No newline at end of file +
    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Background

    It is common for developers to use open-source libraries and frameworks: open-source software is freely available, often robust, and flexible. Using OSS libraries makes the developer’s work easier avoiding the developers starting each time from scratch which is inefficient (long time to reach a stable software release) and lead to duplication of effort. One of the first tasks of RSE at the eScience center is to identify potential OSS libraries and use them appropriately. In Unit 1, we cover the basics of OSS libraries which hopefully will help you to make well-informed decisions about OSS libraries in your projects.

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Further Reading

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
    - \ No newline at end of file +
    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Further Reading

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    • Understand the Benefits and Risks of Using Open-Source Software (OSS): Learners will be able to explain the advantages of using OSS libraries, including saving development time, reducing duplication of effort, and promoting collaboration, while also identifying and mitigating potential risks associated with their use.
    • Evaluate OSS Libraries for Project Integration: Learners will be able to assess OSS libraries based on criteria such as development philosophy, community support, licensing, and compatibility, to make informed decisions on which libraries to incorporate into their projects.
    • Manage OSS Library Usage and Contributions
      will be able to manage the integration and contribution to OSS projects, understanding the organizational risks, governance, and best practices for using and contributing to OSS without compromising security, stability, or business objectives.
    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
    - \ No newline at end of file +
    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    • Understand the Benefits and Risks of Using Open-Source Software (OSS): Learners will be able to explain the advantages of using OSS libraries, including saving development time, reducing duplication of effort, and promoting collaboration, while also identifying and mitigating potential risks associated with their use.
    • Evaluate OSS Libraries for Project Integration: Learners will be able to assess OSS libraries based on criteria such as development philosophy, community support, licensing, and compatibility, to make informed decisions on which libraries to incorporate into their projects.
    • Manage OSS Library Usage and Contributions
      will be able to manage the integration and contribution to OSS projects, understanding the organizational risks, governance, and best practices for using and contributing to OSS without compromising security, stability, or business objectives.
    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Instructions

    For Unit 1, we selected three references which give you an overview of the points you should consider when using an Open-Source Software library in your project. 1 Is a web page part of the Opensource.com web which introduces opensource through a set of questions and points you to more resources on the topic. 2 is a lecture given at the University of Nottingham and introduce a few concepts related to Open-Source Software like different philosophy of software development, third party libraries, build systems, Free software foundation, and a few industries use case. 3 is article covering the risks of using OSS by corporates, the article explains how to control risks related to the use and contribution to open source without reducing its business potential.

    To complete Unit 6, you are expected to:

    • Read/watch the suggested teaching material.
    • Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach.
    • Please send the list of questions to your coach one day before.

    Important: the proposed material includes hands-on assignments. Do try them and if you encounter issues you cannot solve, do share them with your coach.

    Time expected to complete this unit: 4 hours

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
    - \ No newline at end of file +
    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Instructions

    For Unit 1, we selected three references which give you an overview of the points you should consider when using an Open-Source Software library in your project. 1 Is a web page part of the Opensource.com web which introduces opensource through a set of questions and points you to more resources on the topic. 2 is a lecture given at the University of Nottingham and introduce a few concepts related to Open-Source Software like different philosophy of software development, third party libraries, build systems, Free software foundation, and a few industries use case. 3 is article covering the risks of using OSS by corporates, the article explains how to control risks related to the use and contribution to open source without reducing its business potential.

    To complete Unit 6, you are expected to:

    • Read/watch the suggested teaching material.
    • Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach.
    • Please send the list of questions to your coach one day before.

    Important: the proposed material includes hands-on assignments. Do try them and if you encounter issues you cannot solve, do share them with your coach.

    Time expected to complete this unit: 4 hours

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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    Modules AboutContribute
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    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

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    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Background

    As modern computing resources are increasingly geared towards the parallel execution of multiple programs. Nowadays, computing resources can be classified according to the level at which the hardware supports parallelism, with multi-core and multi-processor computers having multiple processing elements within a single machine, while clusters and clouds use multiple computers to work on the same task. Developing skills to write parallel programs becomes essential to exploit the available computing power.

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
    - \ No newline at end of file +
    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Background

    As modern computing resources are increasingly geared towards the parallel execution of multiple programs. Nowadays, computing resources can be classified according to the level at which the hardware supports parallelism, with multi-core and multi-processor computers having multiple processing elements within a single machine, while clusters and clouds use multiple computers to work on the same task. Developing skills to write parallel programs becomes essential to exploit the available computing power.

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Further Reading

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
    - \ No newline at end of file +
    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Further Reading

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    After completing unit 5 you will have acquired a basic concept of performance optimization and parallelization like speedup, scalability, Amdahl’s and Gustafson’s laws, how to design parallel programs, domain decomposition, synchronization, etc.

    • Understand Parallel Computing Architectures: Learners will be able to describe the classification of modern computing resources based on hardware-supported parallelism, including multi-core systems, multi-processor machines, clusters, and cloud infrastructures.
    • Analyze Performance Optimization in Parallel Programming: Learners will be able to identify key performance considerations in parallel programming and explain how to optimize programs to effectively utilize available computing power.
    • Apply Basic Parallel Programming Concepts
      will be able to write and analyze simple parallel programs using insights from the Livermore Computing Center tutorial and Mats Brorsson's lecture, focusing on performance optimization and resource utilization.
    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
    - \ No newline at end of file +
    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    After completing unit 5 you will have acquired a basic concept of performance optimization and parallelization like speedup, scalability, Amdahl’s and Gustafson’s laws, how to design parallel programs, domain decomposition, synchronization, etc.

    • Understand Parallel Computing Architectures: Learners will be able to describe the classification of modern computing resources based on hardware-supported parallelism, including multi-core systems, multi-processor machines, clusters, and cloud infrastructures.
    • Analyze Performance Optimization in Parallel Programming: Learners will be able to identify key performance considerations in parallel programming and explain how to optimize programs to effectively utilize available computing power.
    • Apply Basic Parallel Programming Concepts
      will be able to write and analyze simple parallel programs using insights from the Livermore Computing Center tutorial and Mats Brorsson's lecture, focusing on performance optimization and resource utilization.
    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Instructions

    For Unit 5, we selected two references which will help you to acquire the necessary knowledge of performance optimization and parallel programming. The Introduction to Parallel Computing Tutorial given by the Livermore computing Center is an excellent introduction to the topics of this Unit 1. This tutorial can be combined with the 20 minutes introduction to parallel programming: Performance aspects, by Mats Brorsson from University of Luxembourg 2.

    To complete Unit 5, you are expected to:

    • Read/watch the suggested teaching material.
    • Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach.
    • Please send the list of questions to your coach one day before.
    • Practical hands-on for this unit are provided by the material used for eScience Center External Training program 4. You can do the hands-on individually or join a the eScience Center external workshop. Check the eScience Digital-skills for the workshops schedule, contact the eScience Center Training to check whether there is still space for you to join.

    Time expected to complete this unit: 4 hours

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
    - \ No newline at end of file +
    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Instructions

    For Unit 5, we selected two references which will help you to acquire the necessary knowledge of performance optimization and parallel programming. The Introduction to Parallel Computing Tutorial given by the Livermore computing Center is an excellent introduction to the topics of this Unit 1. This tutorial can be combined with the 20 minutes introduction to parallel programming: Performance aspects, by Mats Brorsson from University of Luxembourg 2.

    To complete Unit 5, you are expected to:

    • Read/watch the suggested teaching material.
    • Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach.
    • Please send the list of questions to your coach one day before.
    • Practical hands-on for this unit are provided by the material used for eScience Center External Training program 4. You can do the hands-on individually or join a the eScience Center external workshop. Check the eScience Digital-skills for the workshops schedule, contact the eScience Center Training to check whether there is still space for you to join.

    Time expected to complete this unit: 4 hours

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Teaching Material

    Introduction to Parallel computing, Livermore Computing Center Online Tutorial

    threading vs multiprocessing in python Talk

    Performing Asynchronous I/O Bound Operations (Jeffrey Richter) Talk

    Programming Paradigms material proposed by the NLeSC external Training: intermediate Research software Development online Material

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
    - \ No newline at end of file +
    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Teaching Material

    Introduction to Parallel computing, Livermore Computing Center Online Tutorial

    threading vs multiprocessing in python Talk

    Performing Asynchronous I/O Bound Operations (Jeffrey Richter) Talk

    Programming Paradigms material proposed by the NLeSC external Training: intermediate Research software Development online Material

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Background

    For Unit 2, we selected a number of references which will help you go beyond just knowing the syntax of the language. teaching material 1 is a talk given at a conference in 2017 which goes over the common programming paradigm and explains the similarities and the differences. teaching material 2 is the first lecture of course at Stanford university which aims to teach several programming languages. -The lecture is a general introduction to the course, it stresses the intellectual value of learning a programming language which is to study the paradigm they represent, so do not focus on the details but more on how the lecturer makes the link between a language and its paradigm.

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
    - \ No newline at end of file +The lecture is a general introduction to the course, it stresses the intellectual value of learning a programming language which is to study the paradigm they represent, so do not focus on the details but more on how the lecturer makes the link between a language and its paradigm.

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Further Reading

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
    - \ No newline at end of file +
    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Further Reading

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Unit 2 aims to raise your awareness about the fact that when you choose a programming language for your project.

    • Analyze Programming Paradigms: Learners will be able to compare and contrast common programming paradigms by identifying their key characteristics, similarities, and differences.
    • Understand the Intellectual Value of Programming Languages: Learners will be able to explain the intellectual benefits of studying programming languages by linking specific languages to the paradigms they represent.
    • Develop Critical Thinking Skills in Paradigm Application: Learners will be able to evaluate the suitability of different programming paradigms for various problem-solving scenarios.

    Note: It is advised that you develop more in-depth knowledge about the programming paradigm you will use during the project which is beyond the scope of this unit.

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
    - \ No newline at end of file +
    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Unit 2 aims to raise your awareness about the fact that when you choose a programming language for your project.

    • Analyze Programming Paradigms: Learners will be able to compare and contrast common programming paradigms by identifying their key characteristics, similarities, and differences.
    • Understand the Intellectual Value of Programming Languages: Learners will be able to explain the intellectual benefits of studying programming languages by linking specific languages to the paradigms they represent.
    • Develop Critical Thinking Skills in Paradigm Application: Learners will be able to evaluate the suitability of different programming paradigms for various problem-solving scenarios.

    Note: It is advised that you develop more in-depth knowledge about the programming paradigm you will use during the project which is beyond the scope of this unit.

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Instructions

    To complete Unit 2, you are expected to:

    • Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach.
    • Please send the list of questions to your coach one day before.
    • Practical hands-on for this unit are provided by the material used for eScience Center External Training program 3. You can do the hands-on individually or join a the eScience Center external workshop. Check the eScience Digital-skills for the workshops schedule, -contact the eScience Center Training to check whether there is still space for you to join.
    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
    - \ No newline at end of file +contact the eScience Center Training to check whether there is still space for you to join.
    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Teaching Material

    • Programming Across Paradigms, by AnjanaVakil GOTO conf. 2017 Talk Slides
    • Programming Paradigms, Jerry Cain, Stanford university Lecture 1
    • Programming Paradigms material proposed by the NLeSC external Training: intermediate Research software Development online Material

    Time expected to complete this unit: 4 hours

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
    - \ No newline at end of file +
    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Teaching Material

    • Programming Across Paradigms, by AnjanaVakil GOTO conf. 2017 Talk Slides
    • Programming Paradigms, Jerry Cain, Stanford university Lecture 1
    • Programming Paradigms material proposed by the NLeSC external Training: intermediate Research software Development online Material

    Time expected to complete this unit: 4 hours

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Background

    Mode readability is an important quality of good code, it is a subjective topic which varies between developers. If code is easy to read, it will be easy to understand and easy to debug, maintain and extend, 1 short video on the importance of code formatting. Writing complicated code is easy, writing simple code is harder and takes longer. Learning to make code readable/understandable is difficult for inexperienced developers because it can be difficult to quantify the differences between readable code and un-readable code.

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
    - \ No newline at end of file +
    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Background

    Mode readability is an important quality of good code, it is a subjective topic which varies between developers. If code is easy to read, it will be easy to understand and easy to debug, maintain and extend, 1 short video on the importance of code formatting. Writing complicated code is easy, writing simple code is harder and takes longer. Learning to make code readable/understandable is difficult for inexperienced developers because it can be difficult to quantify the differences between readable code and un-readable code.

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Further Reading

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
    - \ No newline at end of file +
    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Further Reading

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    • Understand the Importance of Code Readability: Learners will be able to explain how readable code enhances debugging, maintenance, and extensibility, and why it is essential for collaborative and long-term software development.
    • Apply Principles of Clean Code and Formatting: Learners will be able to write readable and well-formatted code by incorporating concepts from Clean Code by Robert C. Martin.
    • Follow Python-Specific Coding Standards: Learners will be able to apply the PEP8 guidelines to improve the readability and consistency of Python code, recognizing its relevance to common practices in modern programming environments.
    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
    - \ No newline at end of file +
    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    • Understand the Importance of Code Readability: Learners will be able to explain how readable code enhances debugging, maintenance, and extensibility, and why it is essential for collaborative and long-term software development.
    • Apply Principles of Clean Code and Formatting: Learners will be able to write readable and well-formatted code by incorporating concepts from Clean Code by Robert C. Martin.
    • Follow Python-Specific Coding Standards: Learners will be able to apply the PEP8 guidelines to improve the readability and consistency of Python code, recognizing its relevance to common practices in modern programming environments.
    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Instructions

    For Unit 3, we selected a couple of references which will help to attract your attention to the importance of software readability and code formatting. 2 is series of 10 videos based on the book “Clean Code by Robert C. Martin”. Like Unit 2, 3 points to the Code Quality Chapter of the Turing way which convers enough details on the topic help you write a readable and will formatted code. Reference 4 is an extra reference for Python programmers, which is quite common these days inside and outside the Center, it is a quick overview of PEP8 code.

    To complete Unit 3, you are expected to:

    • Read/watch the suggested teaching material
    • Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach.
    • Please send the list of questions to your coach one day before the weekly meetings..

    Time expected to complete this unit: 4 hours

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
    - \ No newline at end of file +
    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Instructions

    For Unit 3, we selected a couple of references which will help to attract your attention to the importance of software readability and code formatting. 2 is series of 10 videos based on the book “Clean Code by Robert C. Martin”. Like Unit 2, 3 points to the Code Quality Chapter of the Turing way which convers enough details on the topic help you write a readable and will formatted code. Reference 4 is an extra reference for Python programmers, which is quite common these days inside and outside the Center, it is a quick overview of PEP8 code.

    To complete Unit 3, you are expected to:

    • Read/watch the suggested teaching material
    • Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach.
    • Please send the list of questions to your coach one day before the weekly meetings..

    Time expected to complete this unit: 4 hours

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Teaching Material

    • Python Code Formatting: The Key to Efficient ReadabilityYouTube video
    • Code Clean Series – based on the book “Clean Code by Robert C. Martin”Playlist
    • The Turing way: code quality chapter Online book
    • Writing Beautiful Python - An Overview of PEP 8 PyCon UK
    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
    - \ No newline at end of file +
    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Teaching Material

    • Python Code Formatting: The Key to Efficient ReadabilityYouTube video
    • Code Clean Series – based on the book “Clean Code by Robert C. Martin”Playlist
    • The Turing way: code quality chapter Online book
    • Writing Beautiful Python - An Overview of PEP 8 PyCon UK
    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Background

    Requirements Engineering is a fundamental element of software development, it has evolved to become a critical process that ensures the successful implementation of software projects. At the eScience center, we believe that great emphasis should be put on requirements engineering in all our software development projects. This is because requirements engineering helps to ensure that the software we develop meets the needs of the users and stakeholders, thereby increasing the likelihood of project success and user satisfaction.

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
    - \ No newline at end of file +
    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Background

    Requirements Engineering is a fundamental element of software development, it has evolved to become a critical process that ensures the successful implementation of software projects. At the eScience center, we believe that great emphasis should be put on requirements engineering in all our software development projects. This is because requirements engineering helps to ensure that the software we develop meets the needs of the users and stakeholders, thereby increasing the likelihood of project success and user satisfaction.

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Further Reading

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
    - \ No newline at end of file +
    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Further Reading

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    • Understand the Importance of Requirements Engineering: Learners will be able to explain the role of requirements engineering in ensuring that software meets the needs of users and stakeholders, contributing to the success and satisfaction of software projects.
    • Explore Agile Methodologies in Software Development: Learners will be able to describe key Agile principles and how they are applied in the context of requirements engineering to enhance flexibility and responsiveness in software development.
    • Apply Requirements Engineering Practices in Software Projects
      will be able to apply the principles of requirements engineering and Agile methodologies to develop clear, actionable requirements that align with user and stakeholder needs, improving the effectiveness of software development processes.
    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
    - \ No newline at end of file +
    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    • Understand the Importance of Requirements Engineering: Learners will be able to explain the role of requirements engineering in ensuring that software meets the needs of users and stakeholders, contributing to the success and satisfaction of software projects.
    • Explore Agile Methodologies in Software Development: Learners will be able to describe key Agile principles and how they are applied in the context of requirements engineering to enhance flexibility and responsiveness in software development.
    • Apply Requirements Engineering Practices in Software Projects
      will be able to apply the principles of requirements engineering and Agile methodologies to develop clear, actionable requirements that align with user and stakeholder needs, improving the effectiveness of software development processes.
    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Instructions

    For Unit 5, we have selected several videos from a comprehensive playlist that will help you develop a solid understanding of the principles of Software Requirements Engineering and Agile methodologies.

    To complete Unit 5, you are expected to:

    • Read/watch the suggested teaching material
    • Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach.
    • Please send the list of questions to your coach one day before the weekly meetings..

    Time expected to complete this unit: 4 hours

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
    - \ No newline at end of file +
    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Instructions

    For Unit 5, we have selected several videos from a comprehensive playlist that will help you develop a solid understanding of the principles of Software Requirements Engineering and Agile methodologies.

    To complete Unit 5, you are expected to:

    • Read/watch the suggested teaching material
    • Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach.
    • Please send the list of questions to your coach one day before the weekly meetings..

    Time expected to complete this unit: 4 hours

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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    eScience Internal Training
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    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Teaching Material

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    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Background

    Coding is just one element of the research software lifecycle. Successful research software starts first with intensive interactions with the problem owners (domain scientists) and ends with reaching out to the potential users, and there are many phases in between. In this unit we hope to raise awareness among the RSEs of the importance of certain aspects which cover the entire research software lifecycle and will have a crucial impact on the success of a given research software.

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
    - \ No newline at end of file +
    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Background

    Coding is just one element of the research software lifecycle. Successful research software starts first with intensive interactions with the problem owners (domain scientists) and ends with reaching out to the potential users, and there are many phases in between. In this unit we hope to raise awareness among the RSEs of the importance of certain aspects which cover the entire research software lifecycle and will have a crucial impact on the success of a given research software.

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Further Reading

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
    - \ No newline at end of file +
    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Further Reading

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    • after completing Unit 1 you will have learned -
      • the basics of reproducible research
      • the basics of project design
      • some important eScience best practices.

    Note: Unit 1 does not involve practical hands-on. It involve reading proposed teaching material and discussing it within a group or with your coach.

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
    - \ No newline at end of file +
    • the basics of reproducible research
    • the basics of project design
    • some important eScience best practices.

    Note: Unit 1 does not involve practical hands-on. It involve reading proposed teaching material and discussing it within a group or with your coach.

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Instructions

    As an employee of the eScience Center a must-read document is the Netherlands eScience Center Guide 1, it contains a gentle introduction to projects and software development at the Center. The content of the guide goes beyond the scope of this unit. Certain topics listed briefly in the guide will be discussed in more detail in the following units. To broaden your knowledge on research software development in general we do encourage you to read two other references namely the Turing way 2 and the Sustain 2021 report 3.

    To complete Unit 1, you are expected to:

    • Read/watch the suggested teaching material
    • Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach.
    • Please send the list of questions to your coach one day before the weekly meetings..

    Time expected to complete this unit: 4 hours

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
    - \ No newline at end of file +
    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Instructions

    As an employee of the eScience Center a must-read document is the Netherlands eScience Center Guide 1, it contains a gentle introduction to projects and software development at the Center. The content of the guide goes beyond the scope of this unit. Certain topics listed briefly in the guide will be discussed in more detail in the following units. To broaden your knowledge on research software development in general we do encourage you to read two other references namely the Turing way 2 and the Sustain 2021 report 3.

    To complete Unit 1, you are expected to:

    • Read/watch the suggested teaching material
    • Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach.
    • Please send the list of questions to your coach one day before the weekly meetings..

    Time expected to complete this unit: 4 hours

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Citing software

    Software has become a crucial part of scientific research, yet it is not cited or credited as often and as easily as traditional research outputs. However, it is important to properly cite software, for many reasons, among which:

    Understanding Research Fields: Software is a product of research, and by not citing it, we leave holes in the record of research of progress in those fields.

    Recognition: Academic researchers at all levels, including students, postdocs, faculty, and staff, should be credited for the software products they develop and contribute to, particularly when those products enable or further research done by others. Non-academic researchers should also be credited for their software work, though the specific forms of credit are different than for academic researchers. Furthermore, citations can be tracked, which allows for more accurate assessment of the software's impact: who uses it, and what projects does it contribute to?

    Discovering Software: Citations enable the specific software used in a research product to be found. Additional researchers can then use the same software for different purposes, leading to credit for those responsible for the software.

    Reproducibility: Citation of specific software used is a crucial step in allowing other researchers to reproduce your results, although it is not sufficient. Additional information such as configurations and platform issues are also needed. Accurate information about the software — and its version! — used in your research is necessary for others to obtain and use the same software, making it easier to validate and build upon your research.

    In this module, we will further illustrate the importance of software citation, and we will demonstrate how scientific software can be cited, and how to facilitate this as the author of scientific software. Here, you will be introduced to the file type CITATION.cff, which was developed especially for this purpose. -:::

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
    - \ No newline at end of file +:::

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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approach, and its implementation can vary depending on an organization's specific needs and constraints.The primary objective is to increase the speed, quality, and reliability of software delivery",{"type":16,"tag":23,"props":1503,"children":1504},{},[1505],{"type":21,"value":9},{"type":16,"tag":28,"props":1507,"children":1509},{"id":1508},"reusability-of-research-software",[1510],{"type":21,"value":1511},"Reusability of Research software",{"type":16,"tag":700,"props":1513,"children":1514},{"style":702},[1515],{"type":16,"tag":35,"props":1516,"children":1517},{},[1518],{"type":16,"tag":39,"props":1519,"children":1520},{},[1521,1523],{"type":21,"value":1522},"Does following SE best practices guarantee re-usability and user adoption?\n",{"type":16,"tag":35,"props":1524,"children":1525},{},[1526,1531],{"type":16,"tag":39,"props":1527,"children":1528},{},[1529],{"type":21,"value":1530},"it should in increase 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point",{"type":16,"tag":39,"props":1571,"children":1572},{},[1573,1575],{"type":21,"value":1574},"Reach out potential\n",{"type":16,"tag":35,"props":1576,"children":1577},{},[1578],{"type":16,"tag":39,"props":1579,"children":1580},{},[1581],{"type":21,"value":1582},"Tutorials/demos/papers",{"type":16,"tag":39,"props":1584,"children":1585},{},[1586],{"type":21,"value":1587},"Dont forget to make the software repository public",{"type":16,"tag":23,"props":1589,"children":1590},{},[1591],{"type":21,"value":9},{"type":16,"tag":28,"props":1593,"children":1595},{"id":1594},"takeaway",[1596],{"type":21,"value":1597},"Takeaway",{"type":16,"tag":700,"props":1599,"children":1600},{"style":702},[1601],{"type":16,"tag":35,"props":1602,"children":1603},{},[1604,1622],{"type":16,"tag":39,"props":1605,"children":1606},{},[1607,1609],{"type":21,"value":1608},"Developing a software is\n",{"type":16,"tag":35,"props":1610,"children":1611},{},[1612,1617],{"type":16,"tag":39,"props":1613,"children":1614},{},[1615],{"type":21,"value":1616},"a long and tedious process",{"type":16,"tag":39,"props":1618,"children":1619},{},[1620],{"type":21,"value":1621},"it worth to defend and sustaining but not at all costs",{"type":16,"tag":39,"props":1623,"children":1624},{},[1625,1627],{"type":21,"value":1626},"Suggestions:\n",{"type":16,"tag":35,"props":1628,"children":1629},{},[1630],{"type":16,"tag":39,"props":1631,"children":1632},{},[1633],{"type":21,"value":1634},"Don’t fall in Love with your software When needed drop it and use another solution",{"type":16,"tag":700,"props":1636,"children":1637},{"style":1482},[1638],{"type":16,"tag":650,"props":1639,"children":1643},{"src":1640,"width":729,"style":1641},"/modules/Research-software/media/STEM-Research-software-writing20.png",{"aspectRatio":1642},"275/184",[],{"type":16,"tag":23,"props":1645,"children":1646},{},[1647],{"type":21,"value":9},{"type":16,"tag":23,"props":1649,"children":1650},{},[1651],{"type":16,"tag":744,"props":1652,"children":1655},{"href":1653,"rel":1654},"http://www.esciencecenter.nl",[1174],[1656],{"type":21,"value":1657},"www.esciencecenter.nl",{"type":16,"tag":23,"props":1659,"children":1660},{},[1661],{"type":16,"tag":744,"props":1662,"children":1664},{"href":1663},"mailto:info@esciencecenter.nl",[1665],{"type":21,"value":1666},"info@esciencecenter.nl",{"type":16,"tag":23,"props":1668,"children":1669},{},[1670],{"type":21,"value":1671},"020 - 460 47 70",{"title":7,"searchDepth":1673,"depth":1673,"links":1674},2,[1675,1676,1677,1678,1679,1680,1681,1682,1683,1684,1685,1686],{"id":30,"depth":1673,"text":33},{"id":421,"depth":1673,"text":424},{"id":642,"depth":1673,"text":424},{"id":661,"depth":1673,"text":664},{"id":678,"depth":1673,"text":681},{"id":695,"depth":1673,"text":698},{"id":927,"depth":1673,"text":930},{"id":1103,"depth":1673,"text":1106},{"id":1183,"depth":1673,"text":1186},{"id":1414,"depth":1673,"text":1417},{"id":1508,"depth":1673,"text":1511},{"id":1594,"depth":1673,"text":1597},"markdown","local_fs:modules:Research-software:slides-reasearch-software.md","local_fs","modules/Research-software/slides-reasearch-software.md","md","---\ntitle: Research Software \ntype: slides\norder: 3\n---\n\n\u003C!-- .slide: data-state=\"title\" -->\n\n# Research Software \n\n===\n\n\u003C!-- .slide: data-state=\"standard\" -->\n\n## What is research software?\n \n- Writing research software involves a unique set of challenges and considerations. \n- Research software development is an iterative process, and adapting to emerging best practices and community standards is crucial for success. \n- Collaboration and open communication with colleagues and the research community are key to producing high-quality research software.\n\nNote: \n\nHere are some best practices to keep in mind when developing research software:\n1. **Plan and Design Carefully:**\n - Start with a clear project plan and research goals.\n - Design your software architecture thoughtfully, with modularity and scalability in mind.\n - Document your software design, including data structures, algorithms, and dependencies.\n\n2. **Version Control:**\n - Use a version control system (e.g., Git) to track changes and collaborate with others.\n - Host your code on platforms like GitHub for easy collaboration and sharing.\n\n3. **Reproducibility:**\n - Make your code and research environment as reproducible as possible.\n - Document dependencies and provide setup instructions.\n - Consider containerization with tools like Docker to encapsulate the environment.\n\n4. **Documentation:**\n - Write clear and comprehensive documentation for your code.\n - Include comments in the code to explain complex logic or algorithms.\n - Use tools like Jupyter Notebooks for interactive documentation.\n\n5. **Testing:**\n - Implement unit tests, integration tests, and validation tests to ensure your software works correctly.\n - Use continuous integration (CI) to automate testing and catch errors early.\n\n6. **Performance Optimization:**\n - Optimize critical parts of your code for efficiency.\n - Use profiling tools to identify bottlenecks.\n - Consider parallelization or GPU acceleration for computationally intensive tasks.\n\n7. **Data Management:**\n - Implement data handling and storage best practices, including data cleaning and validation.\n - Use appropriate data structures and databases for efficient data management.\n\n8. **Licensing:**\n - Choose an open-source license that aligns with your project's goals (e.g., MIT, Apache, or GPL).\n - Clearly specify the license in your project repository.\n\n9. **Collaboration:**\n - Foster a collaborative environment by welcoming contributions from others.\n - Use platforms like GitHub for issue tracking and pull requests.\n\n10. **Security:**\n - Protect sensitive data and prevent security vulnerabilities.\n - Keep libraries and dependencies up to date to address security issues.\n\n11. **User-Friendly Interfaces:**\n - Develop user-friendly interfaces and command-line options.\n - Consider creating graphical user interfaces (GUIs) for non-technical users.\n\n12. **Community Building:**\n - Engage with the research community, present your work, and seek feedback.\n - Consider publishing your code and datasets in repositories like Zenodo or Figshare.\n\n13. **Citation and DOI:**\n - Assign a DOI to your software, making it citable in research publications.\n - Encourage others to cite your work when they use your software.\n\n14. **Maintenance and Sustainability:**\n - Plan for long-term maintenance and updates.\n - Seek funding or support to ensure the sustainability of your research software.\n\n15. **Ethics and Compliance:**\n - Ensure your software complies with ethical guidelines and legal regulations, especially when dealing with sensitive data.\n\n16. **Peer Review:**\n - Consider submitting your software for peer review through platforms like the Journal of Open Source Software (JOSS).\n\n===\n\n\u003C!-- .slide: data-state=\"standard\" -->\n\n## Research Software lifecycle \n\n| steps | Authors |\n| :-- | :-- |\n| 1. Conducting Research | Individual / team |\n| **\u003Cu>Design phase:\u003C/u>** **(2)** Software architecture **(3)** Check open source | Individual / team |\n| **\u003Cu>Coding phase:\u003C/u>** **(4)** Choose a language **(5)** Separation of Concern (Modularity) **(6)** Apply software patterns | Individual / team |\n| **\u003Cu>Testing Phase:\u003C/u>** **(7)** Unit testing / Integration / Performance / Security | Individual / team |\n| **\u003Cu>Documentation:\u003C/u>** **(8)** User documentation/ developer / Tutorials / publication | Individual / team |\n| **\u003Cu>Distribution:\u003C/u>** **(9)** Choose a licence **(11.** publication **(12)** make you software public | Individual / team |\n\n===\n\n\u003C!-- .slide: data-state=\"standard\" -->\n\n## Research Software lifecycle \n\n\n\u003Ccenter>\n\u003Cimg src=\"media/Res-soft-lifecycle.png\" width=\"90%\">\n\u003C/center>\n\n===\n\n\u003C!-- .slide: data-state=\"standard\" -->\n\n## Research software in all scientific disciplines\n \n\u003Ccenter>\n\u003Cimg src=\"media/Res-soft-all.png\" width=\"90%\">\n\u003C/center>\n\n===\n\n\u003C!-- .slide: data-state=\"standard\" -->\n\n## Research software requirements\n \n\u003Ccenter>\n\u003Cimg src=\"media/Res-soft-motiv.png\" width=\"90%\">\n\u003C/center>\n\n===\n\n\u003C!-- .slide: data-state=\"standard\" -->\n\n## Re-use existing open-Source software\n\n\u003Cdiv style=\"width: 50%; float: left\">\n\n- Available for free*\n- Maintained by volunteers\n- Documentation not always up to date\n\n\u003C/div>\n\n\u003Cdiv style=\"width: 50%; float: right\">\n\u003Cimg src=\"media/STEM-Research-software-writing11.png\" width=\"100%\">\n\u003C/div>\n\n\u003Cdiv style=\"float: left; clear: both; padding-left: 35%; padding-top: 3em\">\n\u003Csmall>Photo by \u003Ca href=\"https://unsplash.com/@stephaniemoarr?utm_content=creditCopyText&utm_medium=referral&utm_source=unsplash\">xxxx\u003C/a> on \u003Ca href=\"https://unsplash.com/photos/person-holding-white-ceramic-mug-DGt9zA3Fr0g?utm_content=creditCopyText&utm_medium=referral&utm_source=unsplash\">xxxx\u003C/a>\u003C/small>\n\u003C/div>\n \n\nNote: \n\nHow-to\n - **How:** Search engines: searchcode.com\" or \"searchcode.com\n - **Where:** Platforms and directories for open-source software, such as GitHub, GitLab, SourceForge, and Bitbucket\n - **Easy Install**: Package Mangers: make it easy to find and install open-source libraries: pip (Python), npm(Node.js), and RubyGems,(Ruby) …\n - **Under a License**: Apache, MIT, GPL, LGPL, BCD CC*\n - A software license is a legal agreement that define the terms and conditions under which software can be used, distributed, modified, and shared\n\n\nThese licenses serve to protect the rights of the software developer while also defining what users are allowed to do with the software. \nHere are some key components typically found in software licenses:\n\n1. **License Grant:** This section describes what the software license allows users to do. It may specify whether the software can be used, copied, modified, or distributed.\n\n2. **Restrictions:** These are limitations placed on the user, such as restrictions on reverse engineering, decompiling, or using the software for specific purposes.\n\n3. **Usage Terms:** This section may include usage terms, such as the number of users or devices that can use the software, the duration of the license, and whether the license is transferable.\n\n4. **Distribution:** If the software can be distributed, the license may specify the conditions under which it can be shared or sold.\n\n5. **Modification:** If users are allowed to modify the software, the license might specify the terms for sharing those modifications, including whether they must be open source or can remain proprietary.\n\n6. **Attribution:** Some licenses require users to provide attribution to the original software developer in their own work.\n\n7. **Warranty and Liability:** This section outlines the warranty, if any, provided with the software. It may also specify the extent of liability of the software developer for any damages or issues arising from the software's use.\n\n8. **Termination:** The license may include conditions under which it can be terminated, such as non-compliance with the license terms.\n\n9. **Governing Law:** This indicates which jurisdiction's laws will govern the license agreement.\n\nCommon types of software licenses include open source licenses like the MIT License, Apache License, and GNU General Public License (GPL), as well as proprietary licenses used for commercial software. Each type of license comes with its own set of terms and conditions, ranging from highly permissive (e.g., MIT License) to more restrictive (e.g., some proprietary licenses).\n\nIt's essential to carefully read and understand the terms of a software license before using or distributing the software, as violation of the license terms can have legal consequences. Additionally, some licenses are not compatible with one another, so it's crucial to ensure that the software's licenses align with your intended use and distribution.\n\n\n===\n\n\u003C!-- .slide: data-state=\"standard\" -->\n\n## Programming \n\n\n There are several programming paradigms, which are different approaches to writing code and structuring programs\n\n\u003Cdiv style=\"width: 50%; float: left\">\n\n- Procedural Programming\n - Object-Oriented Programming \n - Functional Programming \n - Declarative Programming\n - Logic Programming\n - Concurrent and Parallel Programming\n - Event-Driven Programming\n\u003C/div>\n\n\u003Cdiv style=\"width: 50%; float: right\">\n\u003Cimg src=\"media/STEM-Research-software-writing12.png\" width=\"100%\">\n\u003C/div>\n\n\u003Cdiv style=\"float: left; clear: both; padding-left: 35%; padding-top: 3em\">\n\u003Csmall>Photo by \u003Ca href=\"https://unsplash.com/@stephaniemoarr?utm_content=creditCopyText&utm_medium=referral&utm_source=unsplash\">xxxx\u003C/a> on \u003Ca href=\"https://unsplash.com/photos/person-holding-white-ceramic-mug-DGt9zA3Fr0g?utm_content=creditCopyText&utm_medium=referral&utm_source=unsplash\">xxxx\u003C/a>\u003C/small>\n\u003C/div>\n\nNote: \n\n- Don’t get into religious programming discussion and attitude.\n- Choose based on what fits best\n - Expressiveness\n - Ease of use\n - Eco-systems (libraries, tools for debugging, community)\n- Imperative Programming: In imperative programming, you provide explicit instructions for the computer to follow, specifying the sequence of steps to achieve a particular result. Languages like C, C++, and Pascal are often associated with this paradigm.\n- Procedural Programming: Procedural programming is a subset of imperative programming where code is organized into procedures or functions. It promotes code reusability and maintainability. C and Pascal are examples of languages that support procedural programming.\n- Object-Oriented Programming (OOP): In OOP, programs are structured around objects, which encapsulate data and behavior. Key concepts include classes, inheritance, and polymorphism. Java, C++, and Python are popular OOP languages.\n- Functional Programming (FP): Functional programming treats computation as the evaluation of mathematical functions and avoids changing state and mutable data. It relies heavily on functions as first-class citizens. Languages like Haskell, Lisp, and Erlang are associated with this paradigm.\n- Declarative Programming: In declarative programming, you specify what you want to achieve without detailing how it should be done. SQL, for example, is a declarative language used for querying databases.\n- Logic Programming: Logic programming is based on formal logic and rule-based systems. Prolog is a well-known logic programming language used for symbolic reasoning and knowledge representation.\n- Event-Driven Programming: This paradigm is common in GUI programming and systems where code responds to events or messages. Event-driven languages include JavaScript and Python (with libraries like Tkinter).\nAspect-Oriented Programming (AOP): AOP is a complement to OOP. It focuses on separating cross-cutting concerns (e.g., logging, security) from the main program logic. AspectJ is a popular AOP extension for Java.\n- Concurrent and Parallel Programming: These paradigms address multi-threading, parallel processing, and synchronization. Languages like Go, Erlang, and Java provide features for concurrent and parallel programming.\n- Meta-Programming: Meta-programming is a programming technique where code generates, modifies, or analyzes other code. It's often used in code generation and domain-specific languages.\n- Scripting: Scripting languages are designed for quick, dynamic, and interpreted scripting tasks. Python, Ruby, and - JavaScript are scripting languages commonly used for automation and web development.\n- Array Programming: Array programming emphasizes operations on entire arrays rather than individual elements. Languages like MATLAB and NumPy (Python library) support array programming.\n- Reactive Programming\n\n===\n\n\u003C!-- .slide: data-state=\"standard\" -->\n\n\n## Programming Languages\n\n\u003C!-- ![](media/STEM-Research-software-writing13.jpg)-->\n\n\u003Cdiv style=\"width: 50%; float: left\">\n\nDon’t get into religious programming discussion and attitude\\.\n- Choose based on what fits best\n - Expressiveness\n - Ease of use\n - Eco-systems (libraries, tools for debugging, community)\n\n \u003C/div>\n\n\u003Cdiv style=\"width: 50%; float: right\">\n\u003Cimg src=\"media/STEM-Research-software-writing14.jpg\" width=\"100%\">\n\u003C/div>\n\u003Cdiv style=\"float: left; clear: both; padding-left: 35%; padding-top: 3em\">\n\u003Csmall>Photo by \u003Ca href=\"https://unsplash.com/@stephaniemoarr?utm_content=creditCopyText&utm_medium=referral&utm_source=unsplash\">xxxx\u003C/a> on \u003Ca href=\"https://unsplash.com/photos/person-holding-white-ceramic-mug-DGt9zA3Fr0g?utm_content=creditCopyText&utm_medium=referral&utm_source=unsplash\">xxxx\u003C/a>\u003C/small>\n\u003C/div>\n\nNote: \n\n[https://en.wikipedia.org/wiki/Comparison_of_multi-paradigm_programming_languages](https://en.wikipedia.org/wiki/Comparison_of_multi-paradigm_programming_languages) \n\n===\n\n\u003C!-- .slide: data-state=\"standard\" -->\n\n## Software Architecture\n\n\u003Cdiv style=\"width: 50%; float: left\">\n\nDesign\n- Functional vs Non-functional requirements\n- Architecture style\n- Component design\n- Software patterns\n- Scalability\n- Security Performance\n- Deployment and hosting\n- Monitoring and logging\n- Compliance and standards\n- Change management\n- Review and validation\n\u003C/div>\n\n\u003Cdiv style=\"width: 50%; float: right\">\n\u003Cimg src=\"media/STEM-Research-software-writing15.jpg\" width=\"100%\">\n\u003C/div>\n\u003Cdiv style=\"float: left; clear: both; padding-left: 35%; padding-top: 3em\">\n\u003Csmall>Photo by \u003Ca href=\"https://unsplash.com/@stephaniemoarr?utm_content=creditCopyText&utm_medium=referral&utm_source=unsplash\">xxxx\u003C/a> on \u003Ca href=\"https://unsplash.com/photos/person-holding-white-ceramic-mug-DGt9zA3Fr0g?utm_content=creditCopyText&utm_medium=referral&utm_source=unsplash\">xxxx\u003C/a>\u003C/small>\n\u003C/div>\u003C!-- ![](media/STEM-Research-software-writing16.jpg) -->\n\nNote:\n - Use appropriate Tools:\n - provide features for creating architectural diagrams, defining components, and visualizing the structure of a software system\n\n[https://softwarearchitecture.tools/#diagramming-tools](https://softwarearchitecture.tools/#diagramming-tools)\n\n\u003C!-- ![](media/STEM-Research-software-writing17.jpg) --> \n\n===\n\n\u003C!-- .slide: data-state=\"standard\" -->\n\n# Software engineering best practices\n\n\n\u003Cdiv style=\"width: 50%; float: left\">\n\n- Modular and Scalable Design\n- Version control\n- Coding Standards (Readability/code formatting)\n- Test-Driven Development\n- Code Reviews\n- continuous Integration (CI) and Continuous Delivery (CD)\n- Bug Tracking and Issue Management\n- Security Practices\n- Performance Optimization\n- User Experience (UX) and Usability\n- Documentation\n\u003C/div>\n\n\u003Cdiv style=\"width: 50%; float: right\">\n\u003Cimg src=\"media/STEM-Research-software-writing17.jpg\" width=\"100%\">\n\u003C/div>\n\n\nNote:\n\nUse of Integrated Development Environment (IDE)\n\nhttps://sourceforge\\.net/directory/integrated\\-development\\-environments\\-ide/mac/\n\n===\n\n\u003C!-- .slide: data-state=\"standard\" -->\n\n## DevOpsTeam development\n\n\u003Cdiv style=\"width: 50%; float: left\">\n\n- DevOps foster a culture of collaboration and continuous improvement\n - practices, principles enhance collaboration and communication between software development and IT operations teams\n- The primary objective is to\n - increase the speed, quality, and reliability\n - Continuous integration (CI)\n - Monitoring and Feedback\n - Security\n - Microservices and containers\n - Scalability and Resilience\n - DevOps toolchain\n\u003C/div>\n\u003Cdiv style=\"width:50%; float: right\">\n\u003Cimg src=\"media/STEM-Research-software-writing18.png\" width=\"100%\">\n\u003C/div>\n\nNote:\n\n- DevOpsis not a one-size-fits-all approach, and its implementation can vary depending on an organization's specific needs and constraints.The primary objective is to increase the speed, quality, and reliability of software delivery\n\n===\n\n\u003C!-- .slide: data-state=\"standard\" -->\n\n## Reusability of Research software\n\n\n\u003Cdiv style=\"width: 50%; float: left\">\n\n- Does following SE best practices guarantee re-usability and user adoption?\n - it should in increase adoption,\n - Beyond FAIR\n\u003C/div>\n\u003Cdiv style=\"width:50%; float: right\">\n\u003Cimg src=\"media/STEM-Research-software-writing19.jpg\" width=\"100%\">\n\u003C/div>\n\n\nNote:\n\n- Identify\n - the competition\n - the Unique seling point\n- Reach out potential\n - Tutorials/demos/papers\n- Dont forget to make the software repository public\n\n===\n\n\u003C!-- .slide: data-state=\"standard\" -->\n\n## Takeaway\n\n\u003Cdiv style=\"width: 50%; float: left\">\n\n- Developing a software is\n - a long and tedious process\n - it worth to defend and sustaining but not at all costs\n- Suggestions: \n - Don’t fall in Love with your software When needed drop it and use another solution\n\u003C/div>\n\u003Cdiv style=\"width:50%; float: right\">\n\u003Cimg src=\"media/STEM-Research-software-writing20.png\" width=\"100%\">\n\u003C/div>\n\n===\n\n\u003C!-- .slide: data-state=\"keepintouch\" -->\n\nwww.esciencecenter.nl\n\ninfo@esciencecenter.nl\n \n020 - 460 47 70 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and Issue Management",{"type":16,"tag":39,"props":1361,"children":1362},{},[1363],{"type":21,"value":1364},"Security Practices",{"type":16,"tag":39,"props":1366,"children":1367},{},[1368],{"type":21,"value":1369},"Performance Optimization",{"type":16,"tag":39,"props":1371,"children":1372},{},[1373],{"type":21,"value":1374},"User Experience (UX) and Usability",{"type":16,"tag":39,"props":1376,"children":1377},{},[1378],{"type":21,"value":1379},"Documentation",{"type":16,"tag":700,"props":1381,"children":1382},{"style":724},[1383],{"type":16,"tag":650,"props":1384,"children":1388},{"src":1385,"width":729,"style":1386},"/modules/Research-software/media/STEM-Research-software-writing17.jpg",{"aspectRatio":1387},"1344/867",[],{"type":16,"tag":23,"props":1390,"children":1391},{},[1392],{"type":21,"value":58},{"type":16,"tag":23,"props":1394,"children":1395},{},[1396],{"type":21,"value":1397},"Use of Integrated Development Environment (IDE)",{"type":16,"tag":23,"props":1399,"children":1400},{},[1401],{"type":16,"tag":744,"props":1402,"children":1405},{"href":1403,"rel":1404},"https://sourceforge%5C.net/directory/integrated%5C-development%5C-environments%5C-ide/mac/",[1174],[1406],{"type":21,"value":1407},"https://sourceforge\\.net/directory/integrated\\-development\\-environments\\-ide/mac/",{"type":16,"tag":23,"props":1409,"children":1410},{},[1411],{"type":21,"value":9},{"type":16,"tag":28,"props":1413,"children":1415},{"id":1414},"devopsteam-development",[1416],{"type":21,"value":1417},"DevOpsTeam development",{"type":16,"tag":700,"props":1419,"children":1420},{"style":702},[1421],{"type":16,"tag":35,"props":1422,"children":1423},{},[1424,1437],{"type":16,"tag":39,"props":1425,"children":1426},{},[1427,1429],{"type":21,"value":1428},"DevOps foster a culture of collaboration and continuous improvement\n",{"type":16,"tag":35,"props":1430,"children":1431},{},[1432],{"type":16,"tag":39,"props":1433,"children":1434},{},[1435],{"type":21,"value":1436},"practices, principles enhance collaboration and communication between software development and IT operations teams",{"type":16,"tag":39,"props":1438,"children":1439},{},[1440,1442],{"type":21,"value":1441},"The primary objective is to\n",{"type":16,"tag":35,"props":1443,"children":1444},{},[1445,1450,1455,1460,1465,1470,1475],{"type":16,"tag":39,"props":1446,"children":1447},{},[1448],{"type":21,"value":1449},"increase the speed, quality, and reliability",{"type":16,"tag":39,"props":1451,"children":1452},{},[1453],{"type":21,"value":1454},"Continuous integration (CI)",{"type":16,"tag":39,"props":1456,"children":1457},{},[1458],{"type":21,"value":1459},"Monitoring and Feedback",{"type":16,"tag":39,"props":1461,"children":1462},{},[1463],{"type":21,"value":1464},"Security",{"type":16,"tag":39,"props":1466,"children":1467},{},[1468],{"type":21,"value":1469},"Microservices and containers",{"type":16,"tag":39,"props":1471,"children":1472},{},[1473],{"type":21,"value":1474},"Scalability and Resilience",{"type":16,"tag":39,"props":1476,"children":1477},{},[1478],{"type":21,"value":1479},"DevOps toolchain",{"type":16,"tag":700,"props":1481,"children":1483},{"style":1482},"width:50%; float: right",[1484],{"type":16,"tag":650,"props":1485,"children":1489},{"src":1486,"width":729,"style":1487},"/modules/Research-software/media/STEM-Research-software-writing18.png",{"aspectRatio":1488},"1024/621",[],{"type":16,"tag":23,"props":1491,"children":1492},{},[1493],{"type":21,"value":58},{"type":16,"tag":35,"props":1495,"children":1496},{},[1497],{"type":16,"tag":39,"props":1498,"children":1499},{},[1500],{"type":21,"value":1501},"DevOpsis not a one-size-fits-all approach, and its implementation can vary depending on an organization's specific needs and constraints.The primary objective is to increase the speed, quality, and reliability of software delivery",{"type":16,"tag":23,"props":1503,"children":1504},{},[1505],{"type":21,"value":9},{"type":16,"tag":28,"props":1507,"children":1509},{"id":1508},"reusability-of-research-software",[1510],{"type":21,"value":1511},"Reusability of Research software",{"type":16,"tag":700,"props":1513,"children":1514},{"style":702},[1515],{"type":16,"tag":35,"props":1516,"children":1517},{},[1518],{"type":16,"tag":39,"props":1519,"children":1520},{},[1521,1523],{"type":21,"value":1522},"Does following SE best practices guarantee re-usability and user adoption?\n",{"type":16,"tag":35,"props":1524,"children":1525},{},[1526,1531],{"type":16,"tag":39,"props":1527,"children":1528},{},[1529],{"type":21,"value":1530},"it should in increase adoption,",{"type":16,"tag":39,"props":1532,"children":1533},{},[1534],{"type":21,"value":1535},"Beyond FAIR",{"type":16,"tag":700,"props":1537,"children":1538},{"style":1482},[1539],{"type":16,"tag":650,"props":1540,"children":1544},{"src":1541,"width":729,"style":1542},"/modules/Research-software/media/STEM-Research-software-writing19.jpg",{"aspectRatio":1543},"2560/869",[],{"type":16,"tag":23,"props":1546,"children":1547},{},[1548],{"type":21,"value":58},{"type":16,"tag":35,"props":1550,"children":1551},{},[1552,1570,1583],{"type":16,"tag":39,"props":1553,"children":1554},{},[1555,1557],{"type":21,"value":1556},"Identify\n",{"type":16,"tag":35,"props":1558,"children":1559},{},[1560,1565],{"type":16,"tag":39,"props":1561,"children":1562},{},[1563],{"type":21,"value":1564},"the competition",{"type":16,"tag":39,"props":1566,"children":1567},{},[1568],{"type":21,"value":1569},"the Unique seling point",{"type":16,"tag":39,"props":1571,"children":1572},{},[1573,1575],{"type":21,"value":1574},"Reach out potential\n",{"type":16,"tag":35,"props":1576,"children":1577},{},[1578],{"type":16,"tag":39,"props":1579,"children":1580},{},[1581],{"type":21,"value":1582},"Tutorials/demos/papers",{"type":16,"tag":39,"props":1584,"children":1585},{},[1586],{"type":21,"value":1587},"Dont forget to make the software repository public",{"type":16,"tag":23,"props":1589,"children":1590},{},[1591],{"type":21,"value":9},{"type":16,"tag":28,"props":1593,"children":1595},{"id":1594},"takeaway",[1596],{"type":21,"value":1597},"Takeaway",{"type":16,"tag":700,"props":1599,"children":1600},{"style":702},[1601],{"type":16,"tag":35,"props":1602,"children":1603},{},[1604,1622],{"type":16,"tag":39,"props":1605,"children":1606},{},[1607,1609],{"type":21,"value":1608},"Developing a software is\n",{"type":16,"tag":35,"props":1610,"children":1611},{},[1612,1617],{"type":16,"tag":39,"props":1613,"children":1614},{},[1615],{"type":21,"value":1616},"a long and tedious process",{"type":16,"tag":39,"props":1618,"children":1619},{},[1620],{"type":21,"value":1621},"it worth to defend and sustaining but not at all costs",{"type":16,"tag":39,"props":1623,"children":1624},{},[1625,1627],{"type":21,"value":1626},"Suggestions:\n",{"type":16,"tag":35,"props":1628,"children":1629},{},[1630],{"type":16,"tag":39,"props":1631,"children":1632},{},[1633],{"type":21,"value":1634},"Don’t fall in Love with your software When needed drop it and use another solution",{"type":16,"tag":700,"props":1636,"children":1637},{"style":1482},[1638],{"type":16,"tag":650,"props":1639,"children":1643},{"src":1640,"width":729,"style":1641},"/modules/Research-software/media/STEM-Research-software-writing20.png",{"aspectRatio":1642},"275/184",[],{"type":16,"tag":23,"props":1645,"children":1646},{},[1647],{"type":21,"value":9},{"type":16,"tag":23,"props":1649,"children":1650},{},[1651],{"type":16,"tag":744,"props":1652,"children":1655},{"href":1653,"rel":1654},"http://www.esciencecenter.nl",[1174],[1656],{"type":21,"value":1657},"www.esciencecenter.nl",{"type":16,"tag":23,"props":1659,"children":1660},{},[1661],{"type":16,"tag":744,"props":1662,"children":1664},{"href":1663},"mailto:info@esciencecenter.nl",[1665],{"type":21,"value":1666},"info@esciencecenter.nl",{"type":16,"tag":23,"props":1668,"children":1669},{},[1670],{"type":21,"value":1671},"020 - 460 47 70",{"title":7,"searchDepth":1673,"depth":1673,"links":1674},2,[1675,1676,1677,1678,1679,1680,1681,1682,1683,1684,1685,1686],{"id":30,"depth":1673,"text":33},{"id":421,"depth":1673,"text":424},{"id":642,"depth":1673,"text":424},{"id":661,"depth":1673,"text":664},{"id":678,"depth":1673,"text":681},{"id":695,"depth":1673,"text":698},{"id":927,"depth":1673,"text":930},{"id":1103,"depth":1673,"text":1106},{"id":1183,"depth":1673,"text":1186},{"id":1414,"depth":1673,"text":1417},{"id":1508,"depth":1673,"text":1511},{"id":1594,"depth":1673,"text":1597},"markdown","local_fs:modules:Research-software:slides-reasearch-software.md","local_fs","modules/Research-software/slides-reasearch-software.md","md","---\ntitle: Research Software \ntype: slides\norder: 3\n---\n\n\u003C!-- .slide: data-state=\"title\" -->\n\n# Research Software \n\n===\n\n\u003C!-- .slide: data-state=\"standard\" -->\n\n## What is research software?\n \n- Writing research software involves a unique set of challenges and considerations. \n- Research software development is an iterative process, and adapting to emerging best practices and community standards is crucial for success. \n- Collaboration and open communication with colleagues and the research community are key to producing high-quality research software.\n\nNote: \n\nHere are some best practices to keep in mind when developing research software:\n1. **Plan and Design Carefully:**\n - Start with a clear project plan and research goals.\n - Design your software architecture thoughtfully, with modularity and scalability in mind.\n - Document your software design, including data structures, algorithms, and dependencies.\n\n2. **Version Control:**\n - Use a version control system (e.g., Git) to track changes and collaborate with others.\n - Host your code on platforms like GitHub for easy collaboration and sharing.\n\n3. **Reproducibility:**\n - Make your code and research environment as reproducible as possible.\n - Document dependencies and provide setup instructions.\n - Consider containerization with tools like Docker to encapsulate the environment.\n\n4. **Documentation:**\n - Write clear and comprehensive documentation for your code.\n - Include comments in the code to explain complex logic or algorithms.\n - Use tools like Jupyter Notebooks for interactive documentation.\n\n5. **Testing:**\n - Implement unit tests, integration tests, and validation tests to ensure your software works correctly.\n - Use continuous integration (CI) to automate testing and catch errors early.\n\n6. **Performance Optimization:**\n - Optimize critical parts of your code for efficiency.\n - Use profiling tools to identify bottlenecks.\n - Consider parallelization or GPU acceleration for computationally intensive tasks.\n\n7. **Data Management:**\n - Implement data handling and storage best practices, including data cleaning and validation.\n - Use appropriate data structures and databases for efficient data management.\n\n8. **Licensing:**\n - Choose an open-source license that aligns with your project's goals (e.g., MIT, Apache, or GPL).\n - Clearly specify the license in your project repository.\n\n9. **Collaboration:**\n - Foster a collaborative environment by welcoming contributions from others.\n - Use platforms like GitHub for issue tracking and pull requests.\n\n10. **Security:**\n - Protect sensitive data and prevent security vulnerabilities.\n - Keep libraries and dependencies up to date to address security issues.\n\n11. **User-Friendly Interfaces:**\n - Develop user-friendly interfaces and command-line options.\n - Consider creating graphical user interfaces (GUIs) for non-technical users.\n\n12. **Community Building:**\n - Engage with the research community, present your work, and seek feedback.\n - Consider publishing your code and datasets in repositories like Zenodo or Figshare.\n\n13. **Citation and DOI:**\n - Assign a DOI to your software, making it citable in research publications.\n - Encourage others to cite your work when they use your software.\n\n14. **Maintenance and Sustainability:**\n - Plan for long-term maintenance and updates.\n - Seek funding or support to ensure the sustainability of your research software.\n\n15. **Ethics and Compliance:**\n - Ensure your software complies with ethical guidelines and legal regulations, especially when dealing with sensitive data.\n\n16. **Peer Review:**\n - Consider submitting your software for peer review through platforms like the Journal of Open Source Software (JOSS).\n\n===\n\n\u003C!-- .slide: data-state=\"standard\" -->\n\n## Research Software lifecycle \n\n| steps | Authors |\n| :-- | :-- |\n| 1. Conducting Research | Individual / team |\n| **\u003Cu>Design phase:\u003C/u>** **(2)** Software architecture **(3)** Check open source | Individual / team |\n| **\u003Cu>Coding phase:\u003C/u>** **(4)** Choose a language **(5)** Separation of Concern (Modularity) **(6)** Apply software patterns | Individual / team |\n| **\u003Cu>Testing Phase:\u003C/u>** **(7)** Unit testing / Integration / Performance / Security | Individual / team |\n| **\u003Cu>Documentation:\u003C/u>** **(8)** User documentation/ developer / Tutorials / publication | Individual / team |\n| **\u003Cu>Distribution:\u003C/u>** **(9)** Choose a licence **(11.** publication **(12)** make you software public | Individual / team |\n\n===\n\n\u003C!-- .slide: data-state=\"standard\" -->\n\n## Research Software lifecycle \n\n\n\u003Ccenter>\n\u003Cimg src=\"media/Res-soft-lifecycle.png\" width=\"90%\">\n\u003C/center>\n\n===\n\n\u003C!-- .slide: data-state=\"standard\" -->\n\n## Research software in all scientific disciplines\n \n\u003Ccenter>\n\u003Cimg src=\"media/Res-soft-all.png\" width=\"90%\">\n\u003C/center>\n\n===\n\n\u003C!-- .slide: data-state=\"standard\" -->\n\n## Research software requirements\n \n\u003Ccenter>\n\u003Cimg src=\"media/Res-soft-motiv.png\" width=\"90%\">\n\u003C/center>\n\n===\n\n\u003C!-- .slide: data-state=\"standard\" -->\n\n## Re-use existing open-Source software\n\n\u003Cdiv style=\"width: 50%; float: left\">\n\n- Available for free*\n- Maintained by volunteers\n- Documentation not always up to date\n\n\u003C/div>\n\n\u003Cdiv style=\"width: 50%; float: right\">\n\u003Cimg src=\"media/STEM-Research-software-writing11.png\" width=\"100%\">\n\u003C/div>\n\n\u003Cdiv style=\"float: left; clear: both; padding-left: 35%; padding-top: 3em\">\n\u003Csmall>Photo by \u003Ca href=\"https://unsplash.com/@stephaniemoarr?utm_content=creditCopyText&utm_medium=referral&utm_source=unsplash\">xxxx\u003C/a> on \u003Ca href=\"https://unsplash.com/photos/person-holding-white-ceramic-mug-DGt9zA3Fr0g?utm_content=creditCopyText&utm_medium=referral&utm_source=unsplash\">xxxx\u003C/a>\u003C/small>\n\u003C/div>\n \n\nNote: \n\nHow-to\n - **How:** Search engines: searchcode.com\" or \"searchcode.com\n - **Where:** Platforms and directories for open-source software, such as GitHub, GitLab, SourceForge, and Bitbucket\n - **Easy Install**: Package Mangers: make it easy to find and install open-source libraries: pip (Python), npm(Node.js), and RubyGems,(Ruby) …\n - **Under a License**: Apache, MIT, GPL, LGPL, BCD CC*\n - A software license is a legal agreement that define the terms and conditions under which software can be used, distributed, modified, and shared\n\n\nThese licenses serve to protect the rights of the software developer while also defining what users are allowed to do with the software. \nHere are some key components typically found in software licenses:\n\n1. **License Grant:** This section describes what the software license allows users to do. It may specify whether the software can be used, copied, modified, or distributed.\n\n2. **Restrictions:** These are limitations placed on the user, such as restrictions on reverse engineering, decompiling, or using the software for specific purposes.\n\n3. **Usage Terms:** This section may include usage terms, such as the number of users or devices that can use the software, the duration of the license, and whether the license is transferable.\n\n4. **Distribution:** If the software can be distributed, the license may specify the conditions under which it can be shared or sold.\n\n5. **Modification:** If users are allowed to modify the software, the license might specify the terms for sharing those modifications, including whether they must be open source or can remain proprietary.\n\n6. **Attribution:** Some licenses require users to provide attribution to the original software developer in their own work.\n\n7. **Warranty and Liability:** This section outlines the warranty, if any, provided with the software. It may also specify the extent of liability of the software developer for any damages or issues arising from the software's use.\n\n8. **Termination:** The license may include conditions under which it can be terminated, such as non-compliance with the license terms.\n\n9. **Governing Law:** This indicates which jurisdiction's laws will govern the license agreement.\n\nCommon types of software licenses include open source licenses like the MIT License, Apache License, and GNU General Public License (GPL), as well as proprietary licenses used for commercial software. Each type of license comes with its own set of terms and conditions, ranging from highly permissive (e.g., MIT License) to more restrictive (e.g., some proprietary licenses).\n\nIt's essential to carefully read and understand the terms of a software license before using or distributing the software, as violation of the license terms can have legal consequences. Additionally, some licenses are not compatible with one another, so it's crucial to ensure that the software's licenses align with your intended use and distribution.\n\n\n===\n\n\u003C!-- .slide: data-state=\"standard\" -->\n\n## Programming \n\n\n There are several programming paradigms, which are different approaches to writing code and structuring programs\n\n\u003Cdiv style=\"width: 50%; float: left\">\n\n- Procedural Programming\n - Object-Oriented Programming \n - Functional Programming \n - Declarative Programming\n - Logic Programming\n - Concurrent and Parallel Programming\n - Event-Driven Programming\n\u003C/div>\n\n\u003Cdiv style=\"width: 50%; float: right\">\n\u003Cimg src=\"media/STEM-Research-software-writing12.png\" width=\"100%\">\n\u003C/div>\n\n\u003Cdiv style=\"float: left; clear: both; padding-left: 35%; padding-top: 3em\">\n\u003Csmall>Photo by \u003Ca href=\"https://unsplash.com/@stephaniemoarr?utm_content=creditCopyText&utm_medium=referral&utm_source=unsplash\">xxxx\u003C/a> on \u003Ca href=\"https://unsplash.com/photos/person-holding-white-ceramic-mug-DGt9zA3Fr0g?utm_content=creditCopyText&utm_medium=referral&utm_source=unsplash\">xxxx\u003C/a>\u003C/small>\n\u003C/div>\n\nNote: \n\n- Don’t get into religious programming discussion and attitude.\n- Choose based on what fits best\n - Expressiveness\n - Ease of use\n - Eco-systems (libraries, tools for debugging, community)\n- Imperative Programming: In imperative programming, you provide explicit instructions for the computer to follow, specifying the sequence of steps to achieve a particular result. Languages like C, C++, and Pascal are often associated with this paradigm.\n- Procedural Programming: Procedural programming is a subset of imperative programming where code is organized into procedures or functions. It promotes code reusability and maintainability. C and Pascal are examples of languages that support procedural programming.\n- Object-Oriented Programming (OOP): In OOP, programs are structured around objects, which encapsulate data and behavior. Key concepts include classes, inheritance, and polymorphism. Java, C++, and Python are popular OOP languages.\n- Functional Programming (FP): Functional programming treats computation as the evaluation of mathematical functions and avoids changing state and mutable data. It relies heavily on functions as first-class citizens. Languages like Haskell, Lisp, and Erlang are associated with this paradigm.\n- Declarative Programming: In declarative programming, you specify what you want to achieve without detailing how it should be done. SQL, for example, is a declarative language used for querying databases.\n- Logic Programming: Logic programming is based on formal logic and rule-based systems. Prolog is a well-known logic programming language used for symbolic reasoning and knowledge representation.\n- Event-Driven Programming: This paradigm is common in GUI programming and systems where code responds to events or messages. Event-driven languages include JavaScript and Python (with libraries like Tkinter).\nAspect-Oriented Programming (AOP): AOP is a complement to OOP. It focuses on separating cross-cutting concerns (e.g., logging, security) from the main program logic. AspectJ is a popular AOP extension for Java.\n- Concurrent and Parallel Programming: These paradigms address multi-threading, parallel processing, and synchronization. Languages like Go, Erlang, and Java provide features for concurrent and parallel programming.\n- Meta-Programming: Meta-programming is a programming technique where code generates, modifies, or analyzes other code. It's often used in code generation and domain-specific languages.\n- Scripting: Scripting languages are designed for quick, dynamic, and interpreted scripting tasks. Python, Ruby, and - JavaScript are scripting languages commonly used for automation and web development.\n- Array Programming: Array programming emphasizes operations on entire arrays rather than individual elements. Languages like MATLAB and NumPy (Python library) support array programming.\n- Reactive Programming\n\n===\n\n\u003C!-- .slide: data-state=\"standard\" -->\n\n\n## Programming Languages\n\n\u003C!-- ![](media/STEM-Research-software-writing13.jpg)-->\n\n\u003Cdiv style=\"width: 50%; float: left\">\n\nDon’t get into religious programming discussion and attitude\\.\n- Choose based on what fits best\n - Expressiveness\n - Ease of use\n - Eco-systems (libraries, tools for debugging, community)\n\n \u003C/div>\n\n\u003Cdiv style=\"width: 50%; float: right\">\n\u003Cimg src=\"media/STEM-Research-software-writing14.jpg\" width=\"100%\">\n\u003C/div>\n\u003Cdiv style=\"float: left; clear: both; padding-left: 35%; padding-top: 3em\">\n\u003Csmall>Photo by \u003Ca href=\"https://unsplash.com/@stephaniemoarr?utm_content=creditCopyText&utm_medium=referral&utm_source=unsplash\">xxxx\u003C/a> on \u003Ca href=\"https://unsplash.com/photos/person-holding-white-ceramic-mug-DGt9zA3Fr0g?utm_content=creditCopyText&utm_medium=referral&utm_source=unsplash\">xxxx\u003C/a>\u003C/small>\n\u003C/div>\n\nNote: \n\n[https://en.wikipedia.org/wiki/Comparison_of_multi-paradigm_programming_languages](https://en.wikipedia.org/wiki/Comparison_of_multi-paradigm_programming_languages) \n\n===\n\n\u003C!-- .slide: data-state=\"standard\" -->\n\n## Software Architecture\n\n\u003Cdiv style=\"width: 50%; float: left\">\n\nDesign\n- Functional vs Non-functional requirements\n- Architecture style\n- Component design\n- Software patterns\n- Scalability\n- Security Performance\n- Deployment and hosting\n- Monitoring and logging\n- Compliance and standards\n- Change management\n- Review and validation\n\u003C/div>\n\n\u003Cdiv style=\"width: 50%; float: right\">\n\u003Cimg src=\"media/STEM-Research-software-writing15.jpg\" width=\"100%\">\n\u003C/div>\n\u003Cdiv style=\"float: left; clear: both; padding-left: 35%; padding-top: 3em\">\n\u003Csmall>Photo by \u003Ca href=\"https://unsplash.com/@stephaniemoarr?utm_content=creditCopyText&utm_medium=referral&utm_source=unsplash\">xxxx\u003C/a> on \u003Ca href=\"https://unsplash.com/photos/person-holding-white-ceramic-mug-DGt9zA3Fr0g?utm_content=creditCopyText&utm_medium=referral&utm_source=unsplash\">xxxx\u003C/a>\u003C/small>\n\u003C/div>\u003C!-- ![](media/STEM-Research-software-writing16.jpg) -->\n\nNote:\n - Use appropriate Tools:\n - provide features for creating architectural diagrams, defining components, and visualizing the structure of a software system\n\n[https://softwarearchitecture.tools/#diagramming-tools](https://softwarearchitecture.tools/#diagramming-tools)\n\n\u003C!-- ![](media/STEM-Research-software-writing17.jpg) --> \n\n===\n\n\u003C!-- .slide: data-state=\"standard\" -->\n\n# Software engineering best practices\n\n\n\u003Cdiv style=\"width: 50%; float: left\">\n\n- Modular and Scalable Design\n- Version control\n- Coding Standards (Readability/code formatting)\n- Test-Driven Development\n- Code Reviews\n- continuous Integration (CI) and Continuous Delivery (CD)\n- Bug Tracking and Issue Management\n- Security Practices\n- Performance Optimization\n- User Experience (UX) and Usability\n- Documentation\n\u003C/div>\n\n\u003Cdiv style=\"width: 50%; float: right\">\n\u003Cimg src=\"media/STEM-Research-software-writing17.jpg\" width=\"100%\">\n\u003C/div>\n\n\nNote:\n\nUse of Integrated Development Environment (IDE)\n\nhttps://sourceforge\\.net/directory/integrated\\-development\\-environments\\-ide/mac/\n\n===\n\n\u003C!-- .slide: data-state=\"standard\" -->\n\n## DevOpsTeam development\n\n\u003Cdiv style=\"width: 50%; float: left\">\n\n- DevOps foster a culture of collaboration and continuous improvement\n - practices, principles enhance collaboration and communication between software development and IT operations teams\n- The primary objective is to\n - increase the speed, quality, and reliability\n - Continuous integration (CI)\n - Monitoring and Feedback\n - Security\n - Microservices and containers\n - Scalability and Resilience\n - DevOps toolchain\n\u003C/div>\n\u003Cdiv style=\"width:50%; float: right\">\n\u003Cimg src=\"media/STEM-Research-software-writing18.png\" width=\"100%\">\n\u003C/div>\n\nNote:\n\n- DevOpsis not a one-size-fits-all approach, and its implementation can vary depending on an organization's specific needs and constraints.The primary objective is to increase the speed, quality, and reliability of software delivery\n\n===\n\n\u003C!-- .slide: data-state=\"standard\" -->\n\n## Reusability of Research software\n\n\n\u003Cdiv style=\"width: 50%; float: left\">\n\n- Does following SE best practices guarantee re-usability and user adoption?\n - it should in increase adoption,\n - Beyond FAIR\n\u003C/div>\n\u003Cdiv style=\"width:50%; float: right\">\n\u003Cimg src=\"media/STEM-Research-software-writing19.jpg\" width=\"100%\">\n\u003C/div>\n\n\nNote:\n\n- Identify\n - the competition\n - the Unique seling point\n- Reach out potential\n - Tutorials/demos/papers\n- Dont forget to make the software repository public\n\n===\n\n\u003C!-- .slide: data-state=\"standard\" -->\n\n## Takeaway\n\n\u003Cdiv style=\"width: 50%; float: left\">\n\n- Developing a software is\n - a long and tedious process\n - it worth to defend and sustaining but not at all costs\n- Suggestions: \n - Don’t fall in Love with your software When needed drop it and use another solution\n\u003C/div>\n\u003Cdiv style=\"width:50%; float: right\">\n\u003Cimg src=\"media/STEM-Research-software-writing20.png\" width=\"100%\">\n\u003C/div>\n\n===\n\n\u003C!-- .slide: data-state=\"keepintouch\" -->\n\nwww.esciencecenter.nl\n\ninfo@esciencecenter.nl\n \n020 - 460 47 70 \n",[1694,1729],{"_path":1695,"_dir":1696,"_draft":6,"_partial":6,"_locale":7,"title":1697,"description":7,"body":1698,"_type":1687,"_id":1726,"_source":1689,"_file":1727,"_extension":1691,"plainText":1728},"/main/about","main","About",{"type":13,"children":1699,"toc":1722},[1700,1706,1711,1717],{"type":16,"tag":28,"props":1701,"children":1703},{"id":1702},"about-this-lessonproject",[1704],{"type":21,"value":1705},"About this lesson/project",{"type":16,"tag":23,"props":1707,"children":1708},{},[1709],{"type":21,"value":1710},"Provide details about the project and lesson.",{"type":16,"tag":28,"props":1712,"children":1714},{"id":1713},"target-audience",[1715],{"type":21,"value":1716},"Target audience",{"type":16,"tag":23,"props":1718,"children":1719},{},[1720],{"type":21,"value":1721},"Define target audience for this 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    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

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    - \ No newline at end of file +
    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Teaching Material

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Background

    As the size of software systems increases, the algorithms and data structures introduced in Unit 4 are no longer the major design problems. When systems are constructed from many components, the organization of the overall system—the software architecture—is the new design challenge. Software architecture design has been addressed in several ways including informal diagrams and descriptive terms, module interconnection languages, templates and frameworks for systems that serve the needs of specific domains, and formal models of component integration mechanisms.

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
    - \ No newline at end of file +
    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Background

    As the size of software systems increases, the algorithms and data structures introduced in Unit 4 are no longer the major design problems. When systems are constructed from many components, the organization of the overall system—the software architecture—is the new design challenge. Software architecture design has been addressed in several ways including informal diagrams and descriptive terms, module interconnection languages, templates and frameworks for systems that serve the needs of specific domains, and formal models of component integration mechanisms.

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Further Reading

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
    - \ No newline at end of file +
    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Further Reading

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    after completing unit 4 you will have acquired a basic understanding of the various data structures and will be able to make an informed decision about the data structure you will be using in your projects.

    • Understand the Role of Software Architecture in System Design: Learners will be able to explain the importance of software architecture in designing large-scale systems.
    • Identify and Compare Software Architecture Approaches: Learners will be able to describe and differentiate between various methods of software architecture design
    • Apply Architectural Principles to Component-Based Systems: Learners will be able to refelct on high-level architecture for a system composed of multiple components
    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
    - \ No newline at end of file +
    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    after completing unit 4 you will have acquired a basic understanding of the various data structures and will be able to make an informed decision about the data structure you will be using in your projects.

    • Understand the Role of Software Architecture in System Design: Learners will be able to explain the importance of software architecture in designing large-scale systems.
    • Identify and Compare Software Architecture Approaches: Learners will be able to describe and differentiate between various methods of software architecture design
    • Apply Architectural Principles to Component-Based Systems: Learners will be able to refelct on high-level architecture for a system composed of multiple components
    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Instructions

    For Unit 4, we selected three references which will help you to acquire a basic understanding of both Data structures and Algorithms. 1 is a 5-hour course given by teamtreehouse.com and contains lectures and hands-on sessions. This will be the main material to study for unit 4.

    We provide extra references for those who like to read more in-depth material on the topic of Unit 3.

    To complete Unit 4, you are expected to:

    • Watch the suggested teaching material.
    • Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach.
    • Please send the list of questions to your coach one day before.

    Important: In this unit the proposed material 1 contains some hands-on assignments. It is crucial to pause the video and perform the hands-on work on your laptop. -Time expected to complete this unit: 4 hours

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
    - \ No newline at end of file +Time expected to complete this unit: 4 hours

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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    Data structure, Algorithms, sorting & searching, freeCodeCamp.org

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    No Title

    Teaching Material

    Data structure, Algorithms, sorting & searching, freeCodeCamp.org

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    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Background

    Software testing is a method of determining whether the actual software product meets the expected requirements and ensuring that the software product is free of defects. It entails running software/system components through their pace using manual or automated tools to evaluate one or more properties of interest like security

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
    - \ No newline at end of file +
    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Background

    Software testing is a method of determining whether the actual software product meets the expected requirements and ensuring that the software product is free of defects. It entails running software/system components through their pace using manual or automated tools to evaluate one or more properties of interest like security

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Further Reading

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
    - \ No newline at end of file +
    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Further Reading

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    • Understand the Role of Software Testing in Development: Learners will be able to explain the importance of software testing in enhancing productivity and improving code quality.
    • Apply Foundational Testing Practices in Research Projects: Learners will be able to implement basic testing techniques safely and effectively in their research projects.
    • Appreciate the Professional Perspective on Software Testing: Learners will be able to reflect on the broader scope and significance of software testing as a professional discipline.
    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
    - \ No newline at end of file +
    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    • Understand the Role of Software Testing in Development: Learners will be able to explain the importance of software testing in enhancing productivity and improving code quality.
    • Apply Foundational Testing Practices in Research Projects: Learners will be able to implement basic testing techniques safely and effectively in their research projects.
    • Appreciate the Professional Perspective on Software Testing: Learners will be able to reflect on the broader scope and significance of software testing as a professional discipline.
    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Instructions

    For Unit 2, we selected a couple of references which will help to motivate you to see the importance of software testing and its impact on your productivity and code quality. 1 Effective unit testing by Elliotte Rusty is a keynote at Devoxx 2017 and focuses on the “why” aspects of testing, it is more on how you improve the development process by testing. 2 points to the Testing Chapter of the Turing way which convers enough details on the topic to let you start with safely with testing in your research projects. Finally, 3 is Open Lecture by James Bach on software testing which is more provocative, and approach testing from practical point of view, it tells the story from the professional testers point of view, it highlights that software testing is not just a matter of writing a few unit tests but it is a profession it itself is, never thought of that way before listening to this talk might be beyond the scope of this unit.

    To complete Unit 2, you are expected to:

    • Read/watch the suggested teaching material
    • Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach.
    • Please send the list of questions to your coach one day before the weekly meetings..

    Time expected to complete this unit: 4 hours

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
    - \ No newline at end of file +
    eScience Internal Training
    Modules AboutContribute
    Netherlands eScience Center LogoNetherlands eScience Center Logo

    No Title

    Instructions

    For Unit 2, we selected a couple of references which will help to motivate you to see the importance of software testing and its impact on your productivity and code quality. 1 Effective unit testing by Elliotte Rusty is a keynote at Devoxx 2017 and focuses on the “why” aspects of testing, it is more on how you improve the development process by testing. 2 points to the Testing Chapter of the Turing way which convers enough details on the topic to let you start with safely with testing in your research projects. Finally, 3 is Open Lecture by James Bach on software testing which is more provocative, and approach testing from practical point of view, it tells the story from the professional testers point of view, it highlights that software testing is not just a matter of writing a few unit tests but it is a profession it itself is, never thought of that way before listening to this talk might be beyond the scope of this unit.

    To complete Unit 2, you are expected to:

    • Read/watch the suggested teaching material
    • Prepare a list of questions and a short reflection on the suggested material. This will be used for the discussions during the weekly consultation hours with the coach.
    • Please send the list of questions to your coach one day before the weekly meetings..

    Time expected to complete this unit: 4 hours

    These materials are developed by the Netherlands eScience Center. Licensed under CC-BY 4.0 unless otherwise noted.
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