|Latest release| |PyPI| |CI status| |Test coverage| |All Contributors|
BioSimulators test suite
========================
The BioSimulators test suite is a tool for validating that biosimulation
software tools implement the `BioSimulators conventions for
biosimulation
tools <https://docs.biosimulations.org/concepts/conventions/>`__.
The test suite is composed of two parts:
- `A collection of example modeling projects <examples>`__. Each
project is represented by a single `COMBINE/OMEX
archive <https://combinearchive.org/>`__ that contains one or more
simulation experiments described using the `Simulation Experiment
Description Markup Language (SED-ML) <https://sed-ml.org>`__ and one
or more models described using a format such as the `BioNetGen
Language (BNGL) <https://bionetgen.org>`__ or the `Systems Biology
Markup Language (SBML) <http://sbml.org>`__.
- Software for checking that biosimulation tools execute these projects
according to the BioSimulators conventions.
- Simulation tools support the `BioSimulators standard command-line
arguments <https://docs.biosimulations.org/concepts/conventions/simulator-interfaces/>`__.
- Simulation tools support the `BioSimulators conventions for Docker
images <https://docs.biosimulations.org/concepts/conventions/simulator-images/>`__.
- Simulation tools follow the `BioSimulators conventions for
executing simulations described by SED-ML files in COMBINE/OMEX
archives <https://docs.biosimulations.org/concepts/conventions/simulation-experiments/>`__.
- Simulation tools support the `BioSimulators conventions for the
outputs of SED-ML files in COMBINE/OMEX
archives <https://docs.biosimulations.org/concepts/conventions/simulation-run-reports/>`__.
Installation instructions, tutorial, and API documentation
----------------------------------------------------------
Installation instructions, tutorial, and API documentation are available
`here <https://docs.biosimulators.org/Biosimulators_test_suite/>`__.
License
-------
The software in this package is released under the `MIT
License <LICENSE>`__. The modeling projects in this package are released
under the `Creative Commons 1.0 Universal (CC0)
license <LICENSE-DATA>`__.
Development team
----------------
This package was developed by the `Karr Lab <https://www.karrlab.org>`__
at the Icahn School of Medicine at Mount Sinai in New York, the
`https://health.uconn.edu/cell-analysis-modeling/ <https://health.uconn.edu/cell-analysis-modeling/>`__
at the University of Connecticut, and the `Center for Reproducible
Biomedical Modeling <http://reproduciblebiomodels.org>`__ with
assistance from the contributors listed `here <CONTRIBUTORS.md>`__.
Contributing to the test suite
------------------------------
We enthusiastically welcome contributions to the test suite! Please see
the `guide to contributing <CONTRIBUTING.md>`__ and the `developer's
code of conduct <CODE_OF_CONDUCT.md>`__.
Acknowledgements
----------------
This work was supported by National Institutes of Health award
P41EB023912.
Questions and comments
----------------------
Please contact the `BioSimulators
Team <mailto:info@biosimulators.org>`__ with any questions or comments.
.. |Latest release| image:: https://img.shields.io/github/v/release/biosimulators/Biosimulators_test_suite
:target: https://github.com/biosimulators/Biosimulators_test_suite/releases
.. |PyPI| image:: https://img.shields.io/pypi/v/Biosimulators-test-suite
:target: https://pypi.org/project/Biosimulators-test-suite/
.. |CI status| image:: https://github.com/biosimulators/Biosimulators_test_suite/workflows/Continuous%20integration/badge.svg
:target: https://github.com/biosimulators/Biosimulators_test_suite/actions?query=workflow%3A%22Continuous+integration%22
.. |Test coverage| image:: https://codecov.io/gh/biosimulators/Biosimulators_test_suite/branch/dev/graph/badge.svg
:target: https://codecov.io/gh/biosimulators/Biosimulators_test_suite
.. |All Contributors| image:: https://img.shields.io/github/all-contributors/biosimulators/Biosimulators_test_suite/HEAD
:target: #contributors-
Raw data
{
"_id": null,
"home_page": "https://github.com/biosimulators/Biosimulators_test_suite",
"name": "biosimulators-test-suite",
"maintainer": "",
"docs_url": null,
"requires_python": "",
"maintainer_email": "",
"keywords": "systems biology modeling simulation BioSimulators",
"author": "Center for Reproducible Biomedical Modeling",
"author_email": "info@biosimulators.org",
"download_url": "https://files.pythonhosted.org/packages/87/e7/a4847c7c5d4f271ae29fe299fb4bebb84d62e6e269b02e4f10d499749280/biosimulators_test_suite-0.1.88.tar.gz",
"platform": null,
"description": "|Latest release| |PyPI| |CI status| |Test coverage| |All Contributors|\n\nBioSimulators test suite\n========================\n\nThe BioSimulators test suite is a tool for validating that biosimulation\nsoftware tools implement the `BioSimulators conventions for\nbiosimulation\ntools <https://docs.biosimulations.org/concepts/conventions/>`__.\n\nThe test suite is composed of two parts:\n\n- `A collection of example modeling projects <examples>`__. Each\n project is represented by a single `COMBINE/OMEX\n archive <https://combinearchive.org/>`__ that contains one or more\n simulation experiments described using the `Simulation Experiment\n Description Markup Language (SED-ML) <https://sed-ml.org>`__ and one\n or more models described using a format such as the `BioNetGen\n Language (BNGL) <https://bionetgen.org>`__ or the `Systems Biology\n Markup Language (SBML) <http://sbml.org>`__.\n\n- Software for checking that biosimulation tools execute these projects\n according to the BioSimulators conventions.\n\n - Simulation tools support the `BioSimulators standard command-line\n arguments <https://docs.biosimulations.org/concepts/conventions/simulator-interfaces/>`__.\n - Simulation tools support the `BioSimulators conventions for Docker\n images <https://docs.biosimulations.org/concepts/conventions/simulator-images/>`__.\n - Simulation tools follow the `BioSimulators conventions for\n executing simulations described by SED-ML files in COMBINE/OMEX\n archives <https://docs.biosimulations.org/concepts/conventions/simulation-experiments/>`__.\n - Simulation tools support the `BioSimulators conventions for the\n outputs of SED-ML files in COMBINE/OMEX\n archives <https://docs.biosimulations.org/concepts/conventions/simulation-run-reports/>`__.\n\nInstallation instructions, tutorial, and API documentation\n----------------------------------------------------------\n\nInstallation instructions, tutorial, and API documentation are available\n`here <https://docs.biosimulators.org/Biosimulators_test_suite/>`__.\n\nLicense\n-------\n\nThe software in this package is released under the `MIT\nLicense <LICENSE>`__. The modeling projects in this package are released\nunder the `Creative Commons 1.0 Universal (CC0)\nlicense <LICENSE-DATA>`__.\n\nDevelopment team\n----------------\n\nThis package was developed by the `Karr Lab <https://www.karrlab.org>`__\nat the Icahn School of Medicine at Mount Sinai in New York, the\n`https://health.uconn.edu/cell-analysis-modeling/ <https://health.uconn.edu/cell-analysis-modeling/>`__\nat the University of Connecticut, and the `Center for Reproducible\nBiomedical Modeling <http://reproduciblebiomodels.org>`__ with\nassistance from the contributors listed `here <CONTRIBUTORS.md>`__.\n\nContributing to the test suite\n------------------------------\n\nWe enthusiastically welcome contributions to the test suite! Please see\nthe `guide to contributing <CONTRIBUTING.md>`__ and the `developer's\ncode of conduct <CODE_OF_CONDUCT.md>`__.\n\nAcknowledgements\n----------------\n\nThis work was supported by National Institutes of Health award\nP41EB023912.\n\nQuestions and comments\n----------------------\n\nPlease contact the `BioSimulators\nTeam <mailto:info@biosimulators.org>`__ with any questions or comments.\n\n.. |Latest release| image:: https://img.shields.io/github/v/release/biosimulators/Biosimulators_test_suite\n :target: https://github.com/biosimulators/Biosimulators_test_suite/releases\n.. |PyPI| image:: https://img.shields.io/pypi/v/Biosimulators-test-suite\n :target: https://pypi.org/project/Biosimulators-test-suite/\n.. |CI status| image:: https://github.com/biosimulators/Biosimulators_test_suite/workflows/Continuous%20integration/badge.svg\n :target: https://github.com/biosimulators/Biosimulators_test_suite/actions?query=workflow%3A%22Continuous+integration%22\n.. |Test coverage| image:: https://codecov.io/gh/biosimulators/Biosimulators_test_suite/branch/dev/graph/badge.svg\n :target: https://codecov.io/gh/biosimulators/Biosimulators_test_suite\n.. |All Contributors| image:: https://img.shields.io/github/all-contributors/biosimulators/Biosimulators_test_suite/HEAD\n :target: #contributors-\n",
"bugtrack_url": null,
"license": "MIT",
"summary": "Tools for validating that biosimulation tools are consistent with the BioSimulators standards",
"version": "0.1.88",
"project_urls": {
"Download": "https://github.com/biosimulators/Biosimulators_test_suite",
"Homepage": "https://github.com/biosimulators/Biosimulators_test_suite"
},
"split_keywords": [
"systems",
"biology",
"modeling",
"simulation",
"biosimulators"
],
"urls": [
{
"comment_text": "",
"digests": {
"blake2b_256": "cf2877ac24e699da03d1763165e0f7ee4cfd4bf2d667620ba34aeadd59109eaa",
"md5": "d5e41402c90cd2ee39466d237f25c211",
"sha256": "c353b9ee9af06540654dc8b34a162e5cb28cfb55cd3f5f81987c9c059f45212f"
},
"downloads": -1,
"filename": "biosimulators_test_suite-0.1.88-py2.py3-none-any.whl",
"has_sig": false,
"md5_digest": "d5e41402c90cd2ee39466d237f25c211",
"packagetype": "bdist_wheel",
"python_version": "py2.py3",
"requires_python": null,
"size": 64248,
"upload_time": "2023-07-26T06:08:04",
"upload_time_iso_8601": "2023-07-26T06:08:04.772754Z",
"url": "https://files.pythonhosted.org/packages/cf/28/77ac24e699da03d1763165e0f7ee4cfd4bf2d667620ba34aeadd59109eaa/biosimulators_test_suite-0.1.88-py2.py3-none-any.whl",
"yanked": false,
"yanked_reason": null
},
{
"comment_text": "",
"digests": {
"blake2b_256": "87e7a4847c7c5d4f271ae29fe299fb4bebb84d62e6e269b02e4f10d499749280",
"md5": "3f582ad3d5beb46cb0c47d619fa23683",
"sha256": "d821ce12e65b2e9ab9b9ba25c738bf88d715cba5fce1097639c084b397fc4701"
},
"downloads": -1,
"filename": "biosimulators_test_suite-0.1.88.tar.gz",
"has_sig": false,
"md5_digest": "3f582ad3d5beb46cb0c47d619fa23683",
"packagetype": "sdist",
"python_version": "source",
"requires_python": null,
"size": 66298,
"upload_time": "2023-07-26T06:08:06",
"upload_time_iso_8601": "2023-07-26T06:08:06.484655Z",
"url": "https://files.pythonhosted.org/packages/87/e7/a4847c7c5d4f271ae29fe299fb4bebb84d62e6e269b02e4f10d499749280/biosimulators_test_suite-0.1.88.tar.gz",
"yanked": false,
"yanked_reason": null
}
],
"upload_time": "2023-07-26 06:08:06",
"github": true,
"gitlab": false,
"bitbucket": false,
"codeberg": false,
"github_user": "biosimulators",
"github_project": "Biosimulators_test_suite",
"travis_ci": false,
"coveralls": false,
"github_actions": true,
"requirements": [],
"lcname": "biosimulators-test-suite"
}
JSON
