├── .github └── workflows │ └── main.yml ├── .gitignore ├── LICENSE ├── README.md ├── docs ├── Makefile ├── how_to_build_docs.md ├── make.bat └── source │ ├── _static │ ├── benchmark_n_in_parallel.svg │ ├── benchmark_n_secs.svg │ ├── biomd_simulation.svg │ ├── error_cases.png │ ├── favicon.svg │ ├── logo.svg │ ├── parallel_execution.svg │ ├── sgd_c0.svg │ ├── sgd_c1.svg │ └── sgd_c2.svg │ ├── api │ ├── biomodels_api.md │ ├── jaxfuncs.md │ ├── modulegeneration.md │ ├── parse.md │ └── utils.md │ ├── conf.py │ ├── contributing.md │ ├── design_principles.md │ ├── index.md │ ├── installation.md │ ├── jax101.md │ ├── tutorials │ ├── benchmark.ipynb │ ├── biomodels_curation.ipynb │ ├── gradient_descent.ipynb │ ├── jax_model.py │ ├── parallel_execution.ipynb │ └── py_model.py │ └── why_use.md ├── paper ├── author-info-blocks.lua ├── fig1.png ├── fig2.png ├── fig3.png ├── generate_pdf.sh ├── ieee.csl ├── paper.bib ├── paper.md ├── paper.pdf ├── paper.tex └── scholarly-metadata.lua ├── sbmltoodejax ├── __init__.py ├── biomodels_api.py ├── jaxfuncs.py ├── modulegeneration.py ├── parse.py └── utils.py ├── setup.py └── test ├── jax_model.py ├── test_jaxfuncs.py └── test_modulegeneration.py /.github/workflows/main.yml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/flowersteam/sbmltoodejax/HEAD/.github/workflows/main.yml -------------------------------------------------------------------------------- /.gitignore: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/flowersteam/sbmltoodejax/HEAD/.gitignore -------------------------------------------------------------------------------- /LICENSE: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/flowersteam/sbmltoodejax/HEAD/LICENSE -------------------------------------------------------------------------------- /README.md: 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