https://github.com/coderefinery/software
Environment files for CodeRefinery, also usable via mybinder.org. Used in https://coderefinery.github.io/installation/.
Science Score: 13.0%
This score indicates how likely this project is to be science-related based on various indicators:
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○CITATION.cff file
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✓codemeta.json file
Found codemeta.json file -
○.zenodo.json file
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○DOI references
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○Academic publication links
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○Academic email domains
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○Institutional organization owner
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○JOSS paper metadata
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○Scientific vocabulary similarity
Low similarity (7.4%) to scientific vocabulary
Repository
Environment files for CodeRefinery, also usable via mybinder.org. Used in https://coderefinery.github.io/installation/.
Basic Info
Statistics
- Stars: 1
- Watchers: 4
- Forks: 3
- Open Issues: 0
- Releases: 0
Metadata Files
README.md
Software environment for CodeRefinery workshops
Environment for CodeRefinery workshops for Conda or Python virtual environments (this page is not usable without already knowing about Conda or virtual environments).
environment.yml for Conda
If you are new to Conda, we recommend to start with [Miniforge](Miniforge download overview.
More information on how to work with Conda environments is collected in this page.
console
$ conda env update -f environment.yml
requirements.txt for virtual environments
To install:
console
$ python -m venv coderefinery-venv/
$ source coderefinery-venv/bin/activate
$ pip install -r requirements.txt
To activate later:
console
$ source coderefinery-venv/bin/activate
Binder
This repository is suitable for the Binder service to create a software environment suitable for CodeRefinery lessons.
Note that after a few hours maximum (or a few hours of inactivity), all data is destroyed from here. This is a public service, so don't trust this with data security.
- Link: https://mybinder.org/v2/gh/coderefinery/software/main
- Link directly to terminal: https://mybinder.org/v2/gh/coderefinery/software/main?urlpath=terminals/1
- Link directly to JupyterLab: https://mybinder.org/v2/gh/coderefinery/software/main?urlpath=lab/
- Binder configuration for admins
Owner
- Name: coderefinery
- Login: coderefinery
- Kind: organization
- Email: support@coderefinery.com
- Website: https://coderefinery.org
- Repositories: 141
- Profile: https://github.com/coderefinery
GitHub Events
Total
- Issues event: 2
- Delete event: 5
- Issue comment event: 7
- Push event: 7
- Pull request event: 11
- Create event: 5
Last Year
- Issues event: 2
- Delete event: 5
- Issue comment event: 7
- Push event: 7
- Pull request event: 11
- Create event: 5
Dependencies
- click ==8.0.4
- ipywidgets ==7.6.5
- jupyterlab ==3.3.0
- jupyterlab-git ==0.34.2
- jupyterlab-github ==3.0.1
- matplotlib ==3.5.1
- myst-parser ==0.17.0
- numpy ==1.22.3
- pandas ==1.4.1
- pytest ==7.0.1
- seaborn ==0.11.2
- snakemake ==7.1.1
- sphinx ==4.4.0
- sphinx-autobuild *
- sphinx_rtd_theme ==1.0.0
- actions/cache v1 composite
- actions/checkout v2 composite
- conda-incubator/setup-miniconda v2 composite
- actions/checkout v2 composite
- actions/setup-python v2 composite
- click 8.1.7.*
- ipywidgets 8.1.2.*
- jupyterlab 4.1.2.*
- jupyterlab-git 0.50.0.*
- matplotlib 3.8.3.*
- myst-parser 2.0.0.*
- nbdime 4.0.1.*
- numpy 1.26.4.*
- pandas 2.2.1.*
- pulp <2.8.0
- pytest 8.0.2.*
- pytest-cov 4.1.0.*
- python >=3.10
- seaborn 0.13.2.*
- snakemake-minimal 8.5.3.*
- sphinx 7.2.6.*
- sphinx-autobuild 2024.2.4.*
- sphinx-autodoc2
- sphinx_rtd_theme 2.0.0.*