Knowledge Base Resources
These resources have been contributed and “vetted” by the community of cyberinfrastructure professionals (researchers, research computing facilitators, research software engineers and HPC system administrators) that are participating in programs such as this one, that are supported by the ConnectCI community management platform. Additional Knowledge Base Resources are always welcome!
Science Gateway Tool/Web App Template (Jupyter Notebook + ipywidgets)
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Use this template to turn any science gateway workflow into a web application!
Introduction to Vizualization on HPC Using Python
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This workshop has an introduction to the concepts of visualization followed by hands on exercises. The concepts section has Speaker Notes, and the hands on section has an accompanying Jupyter notebook.
The workshop is one in a series of Introduction to HPC
UCLA Extended Reality (XR) collaboration resources and Workshop
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Comprehensive Extended Reality (XR) collaboration resources for building a high performance extended reality (XR), augmented reality (AR), virtual reality (VR) and mixed reality campus teams. The tags set are a small subset of the the topics covered.
Jetstream Home
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Jetstream2 makes cutting-edge high-performance computing and software easy to use for your research regardless of your project’s scale—even if you have limited experience with supercomputing systems.Cloud-based and on-demand, the 24/7 system includes discipline-specific apps. You can even create virtual machines that look and feel like your lab workstation or home machine, with thousands of times the computing power.
UNIX/command line basics tutorial
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Introductory training materials for working on the UNIX command line.
Scipy Lecture Notes
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Comprehensive tutorials and lecture notes covering various aspects of scientific computing using Python and Scipy.
ACCESS KB Guide - Expanse
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Expanse at SDSC is a cluster designed by Dell and SDSC delivering 5.16 peak petaflops, and offers Composable Systems and Cloud Bursting.
Official Documentation for PyTorch and NumPy
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The official documentation for PyTorch, a machine learning tensor-based framework, and NumPy, which allows for support for ndarrays which is useful to make tensors when implementing NNs. Both libraries can be installed with pip.
Python
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Python course offered by Texas A&M HPRC
Git Branching Workflow and Maneuvers
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A couple of resources that:
1.) Presents and defends a git branching workflow for stable collaborative git based projects. ("A Successful Git Branching Model")
2.) Maps "What do you want to do?" to the commands necessary to accomplish it. ("Git Flight Rules")
Use Windows Subsystem for Linux for HPC Command Line Access from Windows
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Windows Subsystem for Linux (WSL) provides a Linux environment for Windows users to access HPC resources fast and efficiently.
Application Fundamentals (Android)
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The provided text discusses various aspects of Android app development fundamentals. It covers key concepts related to app components, the AndroidManifest.xml file, and app resources. Android apps are built using various components, including Activities, Services, Broadcast Receivers, and Content Providers. These components serve different purposes and have distinct lifecycles. Activities are used for user interaction, services for background tasks, broadcast receivers for system-wide event handling, and content providers for managing shared data.The AndroidManifest.xml file is essential for declaring app components, permissions, and other settings. It informs the Android system about the app's components and capabilities. For instance, it specifies the minimum API level, declares hardware and software requirements, and defines intent filters to enable components to respond to specific actions.It's crucial to declare app requirements, such as device features and minimum Android API levels, to ensure compatibility with different devices and configurations. These declarations help in filtering the app's availability on Google Play for users with compatible devices.Android apps rely on resources separate from code, including images, layouts, strings, and more. These resources are stored in various directories and can be tailored for different device configurations. Providing alternative resources allows for optimization across different languages, screen sizes, orientations, and other factors.
Understanding these fundamentals is essential for developing Android applications effectively, ensuring compatibility, and providing a consistent user experience across a wide range of devices and configurations.
Using Dask on HPC Systems
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A tutorial on the effective use of Dask on HPC resources. The four-hour tutorial will be split into two sections, with early topics focused on novice Dask users and later topics focused on intermediate usage on HPC and associated best practices. The knowledge areas covered include (but are not limited to):
Beginner section
High-level collections including dask.array and dask.dataframe
Distributed Dask clusters using HPC job schedulers
Earth Science data analysis using Dask with Xarray
Using the Dask dashboard to understand your computation
Intermediate section
Optimizing the number of workers and memory allocation
Choosing appropriate chunk shapes and sizes for Dask collections
Querying resource usage and debugging errors
OnShape Documentation
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This contains documentation for getting started with using OnShape for CAD. OnShape cloud-hosted CAD software that lets you work with others like on a Google Doc, with the power and capabilities of any other software like Solidworks or Inventor.
GIS: What is a Geodetic Datums?
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Often when working with GIS, or spatial data, one encounters the word "datum" and it may require that you choose a "datum" when doing GIS computation tasks. Below is a short video on what are datums from NOAA and UCAR.
Open-Source Server Virtualization Platform
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Proxmox Virtual Environment is a hyper-converged infrastructure open-source software. It is a hosted hypervisor that can run operating systems including Linux and Windows on x64 hardware.
A visual introduction to Gaussian Belief Propagation
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This website is an interactive introduction to Gaussian Belief Propagation (GBP). A probabilistic inference algorithm that operates by passing messages between the nodes of arbitrarily structured factor graphs. A special case of loopy belief propagation, GBP updates rely only on local information and will converge independently of the message schedule. The key argument is that, given recent trends in computing hardware, GBP has the right computational properties to act as a scalable distributed probabilistic inference framework for future machine learning systems.
Regular Expressions
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Regular expressions (sometimes referred to as RegEx) is an incredibly powerful tool that is used to define string patterns for "find" or "find and replace" operations on strings, or for input validation. Regular Expressions are used in search engines, in search and replace dialogs of word processors and text editors, and text-processing Linux utilities such as sed and awk. They are supported in many programming languages, including Python, R, Perl, Java, and others.
FreeSurfer Tutorials
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The official MGH / Harvard tutorial page for FreeSurfer. The FreeSurfer group has provided and designed a series of tutorials for using FreeSurfer and for getting acquainted with the concepts needed to perform its various modes of analysis and processing of MRI data. The tutorials are designed to be followed along in a terminal window where commands can be copy/pasted instead of typed.
MATLAB with other Programming Languages
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MATLAB is a really useful tool for data analysis among other computational work. This tutorial takes you through using MATLAB with other programming languages including C, C++, Fortran, Java, and Python.
Educause HEISC-800-171 Community Group
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The purpose of this group is to provide a forum to discuss NIST 800-171 compliance. Participants are encouraged to collaborate and share effective practices and resources that help higher education institutions prepare for and comply with the NIST 800-171 standard as it relates to Federal Student Aid (FSA), CMMC, DFARS, NIH, and NSF activities.
Research Software Engineering Training Materials
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An ongoing collection of RSE training material, workshops, and resources. We are compiling this list as a starting point for future activities. We are especially seeking material that goes beyond basic research computing competency (e.g. what The Carpentries does so well) and is general enough to span multiple domains. Specific tools and technologies used only in one domain, or applicable to only one subset of computing (i.e. HPC) are typically too narrowly focused. When in doubt, submit it to be included or reach out and we’d be happy to discuss.
ACCESS Support Portal
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AHPCC documentary
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This link is a documentary website to use AHPCC.
AI powered VsCode Editor
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**Cursor: The AI-Powered Code Editor**
Cursor is a cutting-edge, AI-first code editor designed to revolutionize the way developers write, debug, and understand code. Built upon the premise of pair-programming with artificial intelligence, Cursor harnesses the capabilities of advanced AI models to offer real-time coding assistance, bug detection, and code generation.
**How Cursor Benefits High-Performance Computing (HPC) Work:**
1. **Efficient Code Development:** With AI-assisted code generation, researchers and developers in the HPC realm can quickly write optimized code for simulations, data processing, or modeling tasks, reducing the time to deployment.
2. **Debugging Assistance:** Handling complex datasets and simulations often lead to intricate bugs. Cursor's capability to automatically investigate errors and determine root causes can save crucial time in the HPC workflow.
3. **Tailored Code Suggestions:** Cursor's AI provides context-specific code suggestions by understanding the entire codebase. For HPC applications where performance is paramount, this means receiving recommendations that align with optimization goals.
4. **Improved Code Quality:** With AI-driven bug scanning and linter checks, Cursor ensures that HPC codes are not only fast but also robust and free of common errors.
5. **Easy Integration:** Being a fork of VSCode, Cursor allows seamless migration, ensuring that developers working in HPC can swiftly integrate their existing VSCode setups and extensions.
In essence, for HPC tasks that demand speed, precision, and robustness, Cursor acts as an invaluable co-pilot, guiding developers towards efficient and optimized coding solutions.
It is free if you provide your own OPEN AI API KEY.