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Open Source Science

https://github.com/csc-uw/ece-env

https://github.com/csc-uw/ece-env

Science Score: 13.0%

This score indicates how likely this project is to be science-related based on various indicators:

  • ○
    CITATION.cff file
  • ✓
    codemeta.json file
    Found codemeta.json file
  • ○
    .zenodo.json file
  • ○
    DOI references
  • ○
    Academic publication links
  • ○
    Academic email domains
  • ○
    Institutional organization owner
  • ○
    JOSS paper metadata
  • ○
    Scientific vocabulary similarity
    Low similarity (8.0%) to scientific vocabulary
Last synced: 9 months ago · JSON representation

Repository

Basic Info
  • Host: GitHub
  • Owner: CSC-UW
  • Default Branch: main
  • Size: 227 KB
Statistics
  • Stars: 0
  • Watchers: 1
  • Forks: 0
  • Open Issues: 0
  • Releases: 0
Created about 3 years ago · Last pushed over 1 year ago
Metadata Files
Readme

README.md

Updated 2/21/2025.

| :warning: WARNING | |:-----------------------------| | This information is outdated.|

I now recommend using uv to manage your environments. If you do, much of the complexity below dissapears. Hopefully, this repositoy can be archived soon.

  1. Install miniforge curl -L -O "https://github.com/conda-forge/miniforge/releases/latest/download/Miniforge3-$(uname)-$(uname -m).sh" bash Miniforge3-$(uname)-$(uname -m).sh
  2. Clone all the repositories you will need: mkdir ~/projects/ece/ cd ~/projects/ece/ git clone https://github.com/grahamfindlay/ece-env.git git clone https://github.com/CSC-UW/spikeinterface.git # Be mindful of branch. wisc/sorting for running sorting, wisc/dev for everything else. Unfortunate we cannot use upstream spikeinterface[full] without significant refactoring of `ecephys`. See that README for more. git clone https://github.com/CSC-UW/ephyviewer.git # You may be able to get away with just the PyPI version of this. git clone https://github.com/CSC-UW/kCSD-python.git # Can hopefully just use PyPI version once scipy.integrate.simpson is used git clone https://github.com/CSC-UW/ecephys.git git clone https://github.com/CSC-UW/wisc_ecephys_tools.git # These following repositories are really not essential, but you might choose to install one (or both) of them. git clone https://github.com/grahamfindlay/seahorse.git git clone https://github.com/CSC-UW/discoflow.git
  3. Install ``` cd ~/projects/ece/ece-env mamba create -n ece python=3.13.2 # Confirmed to work. mamba env update -n ece -f environment.yml mamba activate ece

Owner

  • Name: The Center for Sleep and Consciousness
  • Login: CSC-UW
  • Kind: organization
  • Location: Madison, WI

University of Wisconsin–Madison

GitHub Events

Total
  • Push event: 8
Last Year
  • Push event: 8

Dependencies

environment.yml conda
  • pip
  • python 3.12.*