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Keep Calm and Curate!

Your one-stop tool for curating and submitting SPARC datasets
By SPARC investigators, for SPARC investigators

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Table of Contents

About

SODA (Software to Organize Data Automatically) for SPARC is a desktop software intended to facilitate the data organization and submission process for SPARC investigators and thus promote the FAIR Data Principles. The idea for a computer software that assists researchers in curating and sharing their data originated during the SPARC Hackathon in December 2018, where it won the Public's Choice Award, before receiving support from the National Institutes of Health (NIH) for further development. SODA for SPARC is designed such that users can accomplish all the requirements to submit a SPARC dataset rapidly through a single interface. Moreover, requirements have been broken down into easy-to-perform steps and automation has been integrated to reduce users' effort to a bare minimum during each step, often to just a few clicks.

interface
A screenshot of the user interface of SODA.

Downloading SODA

SODA is distributed as an easy-to-install application for Windows, Mac OS, and Ubuntu. Follow the instructions provided in our dedicated documentation to download the version suitable for your operating system.

All our releases are also accessible in the releases tab. Latest version: 2.1.0

Using SODA

Click on the image below and watch our video to quickly familiarize yourself with the user interface of SODA:

Please see our suggested workflow for preparing and submitting your SPARC dataset rapidly and accurately with SODA.

Although we would highly encourage you to use SODA for the entire organization and submission process of your dataset, SODA is designed such that you are not bound to using the software for all of the steps: you can perform desired steps from SODA and others outside.

Full Documentation

See the Wiki for our full documentation, including details about each features and how to use them as well as guidance for using and contributing to our source code.

Issues and Feedback

To report any issues with the software, suggest improvements, or request a new feature, please open a new issue via the Issues tab. Provide adequate information (operating system, steps leading to error, screenshots) so we can help you efficiently. Alternatively, you could also use our feedback form. The feedback form is also accessible directly in the user interface of SODA.

interface
A screenshot of our feedback form in the user interface of SODA.

Using the Source Code

If you want to contribute, modify SODA to better suit your needs, or compile it for an operating system not mentioned above, please follow the instructions provided in the developer guidelines of our documentation.

License

SODA is distributed under the MIT License. See LICENSE for more information.

Acknowledgements

  • NIH SPARC Initiative
  • Blackfynn Team
  • SPARC Dataset Curation Team
  • Our beta testers, including:
    • Natalia Biscola (Icahn School of Medicine at Mount Sinai)
    • John Dawson (UC Davis)
    • Clara Huesing (Pennington Biomedical Research Center)
    • Scott John (UCLA)
    • Muriel Larauche (Vatche and Tamar Manoukian Division of Digestive Diseases, Department of Medicine, UCLA)
    • Madelyn Lorenz (Washington University in St. Louis)
    • Kun-Han Lu (Weldon School of Biomedical Engineering, Purdue University)
    • Alison Moss (Thomas Jefferson University)
    • Anna Rietsch (Cleveland Clinic, Cleveland OH)
    • Joseph Sassoon (Integrated Medical Systems Laboratory - New York Institute of Technology)

Developers

  • Bhavesh Patel (California Medical Innovations Institute)
  • Tram Ngo (California Medical Innovations Institute)
  • Parya Aghasafari (UC Davis)
  • Karl Helmer (Harvard Medical School/Massachusetts General Hospital)

soda-app-update's People

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soda-app-update's Issues

Dependency Dashboard

This issue lists Renovate updates and detected dependencies. Read the Dependency Dashboard docs to learn more.

Warning

These dependencies are deprecated:

Datasource Name Replacement PR?
npm electron-packager Unavailable
npm electron-rebuild Unavailable

Rate-Limited

These updates are currently rate-limited. Click on a checkbox below to force their creation now.

  • Update dependency font-awesome to v4.7.0
  • Update dependency electron to v31
  • Update dependency electron-builder to v24
  • Update dependency electron-context-menu to v4
  • Update dependency electron-log to v5
  • Update dependency electron-packager to v17
  • Update dependency electron-rebuild to v3
  • Update dependency electron-settings to v4
  • Update dependency electron-updater to v6
  • Update dependency font-awesome to v6
  • Update dependency glob to v10
  • ๐Ÿ” Create all rate-limited PRs at once ๐Ÿ”

Edited/Blocked

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Open

These updates have all been created already. Click a checkbox below to force a retry/rebase of any.

Detected dependencies

html
src/index.html
  • font-awesome 4.0.3
npm
src/package.json
  • @fortawesome/fontawesome-free ^5.14.0
  • @toast-ui/editor ^2.2.0
  • @yaireo/tagify ^3.13.0
  • airtable ^0.11.0
  • axios ^0.27.0
  • bootbox ^5.4.0
  • bootstrap-icons ^1.1.0
  • cropperjs ^1.5.7
  • electron-context-menu ^0.13.0
  • electron-log ^4.2.2
  • electron-settings ^3.2.0
  • electron-shortcut-normalizer ^1.0.0
  • electron-updater ^4.3.5
  • fomantic-ui ^2.8.7
  • glob ^7.1.6
  • html2canvas ^1.0.0-rc.5
  • image-data-uri ^2.0.1
  • jquery ^3.5.1
  • pdfkit ^0.11.0
  • remove-markdown ^0.3.0
  • spur-template ^1.1.0
  • v8-compile-cache ^2.1.1
  • zerorpc-rotkehlchen ^0.1.0
  • electron 6.1.12
  • electron-builder 22.14.13
  • electron-packager 14.2.1
  • electron-rebuild 1.11.0
src/semantic/tasks/config/admin/templates/package.json

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Depfu Error: No dependency files found

Hello,

We've tried to activate or update your repository on Depfu and couldn't find any supported dependency files. If we were to guess, we would say that this is not actually a project Depfu supports and has probably been activated by error.

Monorepos

Please note that Depfu currently only searches for your dependency files in the root folder. We do support monorepos and non-root files, but don't auto-detect them. If that's the case with this repo, please send us a quick email with the folder you want Depfu to work on and we'll set it up right away!

How to deactivate the project

  • Go to the Settings page of either your own account or the organization you've used
  • Go to "Installed Integrations"
  • Click the "Configure" button on the Depfu integration
  • Remove this repo (megasanjay/soda-app-update) from the list of accessible repos.

Please note that using the "All Repositories" setting doesn't make a lot of sense with Depfu.

If you think that this is a mistake

Please let us know by sending an email to [email protected].


This is an automated issue by Depfu. You're getting it because someone configured Depfu to automatically update dependencies on this project.

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