https://github.com/computationalphysiology/simcardems2
Science Score: 26.0%
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
Found 3 DOI reference(s) in README -
○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 (11.0%) to scientific vocabulary
Repository
Basic Info
- Host: GitHub
- Owner: ComputationalPhysiology
- License: mit
- Language: Python
- Default Branch: main
- Size: 150 KB
Statistics
- Stars: 0
- Watchers: 3
- Forks: 0
- Open Issues: 6
- Releases: 0
Metadata Files
README.md
simcardems2
Simcardems2 is the next version of Simula Cardiac Electro-Mechanics Solver (simcardems) and a part of the SimCardioTest project. The solver uses pulse and fenics-beat to solve mechanics and electrophysiology, respectively. Both libraries are based on FEniCS.
Install with Docker
Create a directory for simcardems2 on your local computer and clone the github repository:
shell
mkdir simcardems2
cd simcardems2
gh repo clone ComputationalPhysiology/simcardems2
To run simcardems2 in a Docker container, you can use the following pre-built Docker image which includes the FEniCS library:
shell
docker pull ghcr.io/scientificcomputing/fenics-gmsh:2024-05-30
Inside your simcardems2 directory on your local computer, create a Docker container, here called simcardems2, using the Docker image provided above:
shell
docker run --name simcardems2 -v "$(pwd)":/shared -w /shared -it ghcr.io/scientificcomputing/fenics-gmsh:2024-05-30
The option -v mounts the current directory and its files to the new container.
Inside the Docker container, enter the simcardems2 folder and install simcardems2:
shell
cd simcardems2/
python3 -m pip install -e .
Citing
If you use simcardems2, please cite the original version as follows
@article{Finsberg2023,
doi = {10.21105/joss.04753},
url = {https://doi.org/10.21105/joss.04753},
year = {2023},
publisher = {The Open Journal},
volume = {8},
number = {81},
pages = {4753},
author = {Henrik Nicolay Topnes Finsberg and Ilsbeth Gerarda Maria van Herck and Cécile Daversin-Catty and Hermenegild Arevalo and Samuel Wall},
title = {simcardems: A FEniCS-based cardiac electro-mechanics solver},
journal = {Journal of Open Source Software}
}
Owner
- Name: Computational Physiology at Simula Research Laboratory
- Login: ComputationalPhysiology
- Kind: organization
- Location: Fornebu, Norway
- Website: https://computationalphysiology.github.io
- Repositories: 51
- Profile: https://github.com/ComputationalPhysiology
GitHub organization for the computational physiology department at Simula Research Laboratory
GitHub Events
Total
- Watch event: 1
- Delete event: 4
- Push event: 40
- Pull request review event: 3
- Pull request event: 24
- Create event: 13
Last Year
- Watch event: 1
- Delete event: 4
- Push event: 40
- Pull request review event: 3
- Pull request event: 24
- Create event: 13
Issues and Pull Requests
Last synced: 10 months ago
All Time
- Total issues: 0
- Total pull requests: 16
- Average time to close issues: N/A
- Average time to close pull requests: 23 days
- Total issue authors: 0
- Total pull request authors: 2
- Average comments per issue: 0
- Average comments per pull request: 0.0
- Merged pull requests: 12
- Bot issues: 0
- Bot pull requests: 0
Past Year
- Issues: 0
- Pull requests: 13
- Average time to close issues: N/A
- Average time to close pull requests: 7 days
- Issue authors: 0
- Pull request authors: 2
- Average comments per issue: 0
- Average comments per pull request: 0.0
- Merged pull requests: 11
- Bot issues: 0
- Bot pull requests: 0
Top Authors
Issue Authors
Pull Request Authors
- finsberg (22)
- lenamyk (5)