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Events, outputs, and impact from our community partners via the 2i2c blog .
MyST Mini-Hackathon with the DeepLabCut Team
The DeepLabCut Team # Animal pose estimation using deep neural networks. Courtesy of the DeepLabCut Jupyter Book The DeepLabCut team is a group of researchers and developers who are working on open source tools for analyzing animal pose estimation by training deep neural networks on videos.
NeuroHackademy Summer School Reflections
Thank you to Ariel Rokem and Noah Benson for guest writing this blog post! Group photo from NeuroHackademy 2024 What is NeuroHackademy? # Part summer school, part free-wheeling hackathon, all focused on the use of data science methods in neuroscience, NeuroHackademy is an event that was recently hosted by the University of Washington eScience Institute in Seattle, WA, USA.
Keeping PACE with GPU enabled compute to detect global cloud cover using satellite data
(left, b&w) Model inputs and (right, color) model outputs of a simple multi-layer perceptron for detecting cloud cover. PACE is the NASA Plankton, Aerosol, Cloud, ocean Ecosystem mission that focuses on understanding ocean health and its impact on the atmosphere.
Ephemeral Interactive Computing for the AmeriGEO Workshop
AmeriGEO provides a framework for cooperation in the Americas for the use of Earth data to benefit science and society with data driven decision-making. As part of a virtual workshop held on 1st August 2024, 2i2c provided an interactive computing environment to support the delivery of a NASA TOPST water module.
Collaborating with Development Seed to deliver cyberinfrastructure for NASA VEDA
Thank you to Sajjad Anwar and Sanjay Bhangar for contributing to this post. The VEDA dashboard The 2i2c team are proud to continue our strong working collaboration with Development Seed , following our previous work on launching the US GHG center (also see the Development Seed blog post ).
Openscapes Host a Surface Biology and Geology Workshop with Shared Password Feature
Thanks to Brianna Lind, Julia Lowndes and Andy Teucher for contributing to this blog post! Surface Biology and Geology: VITALS Workshop Openscapes is a value-based initiative that supports kinder, better science based on open source community.
Determining Climate Risks with NASA Earthdata Cloud at Scipy 2024
Determining Climate Risks with NASA Earthdata Cloud is a ScienceCore curriculum module that comprises part of NASA’s Open Science and Transform to Open Science (TOPS) initiatives. The aim of this module is to deliver a hands-on experience with “data-proximate computing” in the cloud with NASA Earthdata products with content co-developed with MetaDocencia .
Enabling neuroscience in the cloud with HHMI Spyglass and MySQL on JupyterHub
The HHMI Spyglass tutorial Spyglass # Spyglass is a framework for reproducible and shareable neuroscience research produced by Loren Frank’s lab at the University of California, San Francisco. Check out our blog post about the release of their preprint to read more about the methods.
Ephemeral Interactive Computing for NASA Communities
We are pleased to announce that we have deployed two ephemeral hubs for NASA communities! What did we do? # As part of the deliverables for our NASA High Priority Open-Source Science (HPOSS) award, we deployed two new ephemeral hubs:
Neurohackademy Summer School in Neuroimaging and Data Science 2024
Neurohackademy Summer School 2i2c are pleased to support the Neurohackademy Summer School in neuroimaging and data science again! Following the success of our collaboration in previous years (see the event page for 2023 ), this year’s course will be held July 29th – August 10th, 2024 and will be hosted by the University of Washington eScience Institute .
US Greenhouse Gas Center supports summer school at CIRA
Summer school for inverse modeling of greenhouse gases 2024 The Cooperative Institute for Research in the Atmosphere ( CIRA ) is an interdisciplinary cooperation between NOAA research scientists and Colorado State University.
Hacking the Project Pythia Cook-off with MyST Markdown
Photo courtesy of Dr Debanjana Das What is Project Pythia? # Project Pythia is the education working group for Pangeo , a community platform for Big Data geoscience in which 2i2c operates a cloud hub.
Low storage alerting for the UToronto cluster
The UToronto hub landing page 2i2c has operated The University of Toronto hub since 2021 and this hub supports over 6000 educators and learners in a day! With a community of this size, file storage can quickly grow out of control and cause issues.
Howard Hughes Medical Institute publishes preprint on Spyglass, a framework for reproducible and shareable neuroscience research
Spyglass landing page Spyglass is a framework for reproducible and shareable neuroscience research produced by Loren Frank’s lab at the University of California, San Francisco. They recently released a preprint about their toolbox, and are using a 2i2c hub to provide accessible interactive cloud environments that demonstrate its functionality and helps researchers get started.
Jupyter Book 2.0 will use MyST
See the Executable Books blog for a post on the future directions of the Jupyter Book project, which will be built on top of the MyST Markdown engine .
Researchers at LEAP-Pangeo investigate overlooked sub-grid air-sea heat flux in climate models
Figure from the preprint showing large and small scale air-sea fluxes are separated. By Julius Busecke et al., licensed under CC BY 4.0 Julius Busecke et al. of the LEAP-Pangeo 1 hub, have recently published a preprint2 that investigates “The Overlooked Sub-Grid Air-Sea Flux in Climate Models” using 2i2c infrastructure.
Security report for jupyter-server-proxy: CVE-2024-28179
What happened? # A few weeks ago, the JupyterHub team discovered a security vulnerability in the jupyter-server-proxy package that would allow potential unauthenticated access to a JupyterHub via WebSockets, allowing unauthenticated users to run arbitrary code on the JupyterHub.
Integrating BinderHub with JupyterHub: Empowering users to manage their own environments
Thanks to Arnim Bleier , Jenny Wong , Georgiana Elena , Damián Avila , Jim Colliander and James Munroe for contributing to this blog post mybinder.org is a very popular service that allows end users to specify and share the environment (languages, packages, etc) required for their notebooks to run correctly by placing configuration files they are already familiar with (like requirements.
Digital public goods for Earth system management: U.S. Greenhouse Gas Center launches
Abstract The International Interactive Computing Collaboration ( 2i2c.org ), working with NASA VEDA , Development Seed and other partners, operates an interactive computing platform for The U.S. Greenhouse Gas Center.
A QGIS desktop in the cloud with JupyterHub
The QGreenland Researcher Workshop JupyterHub is a versatile platform that can serve a desktop with Geospatial Information Systems (GIS) software in the cloud. This was demonstrated by the QGreenland Researcher Workshop that was hosted by the NASA CryoCloud hub.
CILogon usage at 2i2c
The following is a summary of how CILogon is used at 2i2c, how the integration works and a celebration of the partnership.
New project: Open science cloud infrastructure and training for communities in Latin America and Africa
We are excited to announce that the team and proposal described in this blog post has been awarded funding by the Chan Zuckerberg Initiative ! This announcement may be cross-posted on the websites of several collaborating organizations of this grant.
GESIS - 2i2c collaborate to build a persistent BinderHub experience
Introduction # Mybinder.org enables researchers across the world to replicate computational environments in the cloud. It allows researchers to turn static code into interactive literate coding environments with a click of a button within seconds.
Grant progress report: CZI Foundational grant year 2
We recently completed a progress report for Year 2 of our primary CZI funding grant. This funding covers some core operations of 2i2c as well as engineering capacity to run our cloud infrastructure for JupyterHubs.
Open grant narrative: A Collaborative Interactive Computing Service Model for Global Communities
We recently submitted a grant to Chan Zuckerberg Initiative and wish to share some details about it as well as the grant narrative for others to read and re-use. Go to Zenodo record Read on for a quick overview of the proposal.
Reflections on the Jack Eddy Symposium
Reflections on the Jack Eddy Symposium # 2i2c supported and participated in the 3rd Eddy Cross Disciplinary Symposium held recently in Vail Colorado. The event was hosted by the Cooperative Programs for the Advancement of Earth System Science ( CPAESS ) team at the University Corporation for Atmospheric Research ( UCAR ) with support from NASA.
Pangeo Cloud goes live on 2i2c!
2i2c are pleased to announce that the first Pangeo JupyterHub is now live on 2i2c-operated infrastructure! 🎉
2i2c partners with UC Berkeley and CloudBank to provide data science education hubs for community colleges in California
Data8 . MIT licensed. Data8 began as a large introductory data science class at UC Berkeley. It uses a Jupyter Book for all course materials, and uses JupyterHub magic links to distribute course content from the textbook.
Research community: Cryosphere research in the cloud
Cryocloud is a research hub dedicated to “accelerating discovery and enhancing collaboration for NASA Cryosphere communities”. They use their hub to provide access to NASA Earthdata cloud use a community Jupyter Book to organize training and learning within the community via community workshops.
Education community: Data 8 for Community Colleges in California
The Data 8 class began as a large introductory data science class at UC Berkeley. It uses a Jupyter Book for all course materials, and uses JupyterHub magic links to distribute course content from the textbook. 2i2c is working with the Data 8 team to deploy JupyterHubs for community colleges in California that run the Data 8 course, to make the infrastructure and content broadly accessible.
Research communities: The Catalyst Project: Serving historically marginalized communities
The Catalyst Project serves interactive computing hubs to biomedical communities in Latin America and Africa. The project is aimed at learning about the unique challenges in serving communities in global regions that are historically under-served or under-resourced, with the goal of designing effective and sustainable interactive computing services for these communities.
Research communication: The spyglass toolbox demonstration hub
Spyglass is a framework for reproducible and shareable neuroscience research produced by Loren Frank’s lab at the University of California, San Francisco. They recently released a preprint about their toolbox , and are using a 2i2c hub to provide accessible interactive cloud environments that demonstrate its functionality and helps researchers get started.
