{"id":28478823,"url":"https://github.com/neuralensemble/libneuroml","last_synced_at":"2025-07-03T09:31:21.564Z","repository":{"id":2744103,"uuid":"3740176","full_name":"NeuralEnsemble/libNeuroML","owner":"NeuralEnsemble","description":"This package provides Python libNeuroML, for working with neuronal models specified in NeuroML ","archived":false,"fork":false,"pushed_at":"2025-06-06T15:30:45.000Z","size":12039,"stargazers_count":42,"open_issues_count":16,"forks_count":33,"subscribers_count":11,"default_branch":"master","last_synced_at":"2025-06-07T18:07:15.934Z","etag":null,"topics":["neuroml","neuronal-models","python"],"latest_commit_sha":null,"homepage":"http://docs.neuroml.org","language":"Python","has_issues":true,"has_wiki":null,"has_pages":null,"mirror_url":null,"source_name":null,"license":"bsd-3-clause","status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/NeuralEnsemble.png","metadata":{"files":{"readme":"README.md","changelog":null,"contributing":"CONTRIBUTING.md","funding":null,"license":"LICENSE","code_of_conduct":null,"threat_model":null,"audit":null,"citation":null,"codeowners":null,"security":null,"support":null,"governance":null,"roadmap":null,"authors":"AUTHORS","dei":null,"publiccode":null,"codemeta":null,"zenodo":null}},"created_at":"2012-03-16T15:30:59.000Z","updated_at":"2025-05-20T23:02:38.000Z","dependencies_parsed_at":"2023-10-04T19:52:02.277Z","dependency_job_id":"7a2e0b10-5945-4e13-9da5-3f25dd4554ae","html_url":"https://github.com/NeuralEnsemble/libNeuroML","commit_stats":{"total_commits":1277,"total_committers":21,"mean_commits":60.80952380952381,"dds":0.6115896632732968,"last_synced_commit":"f3a0db66c68e14446d811ef04a67e137a19566cb"},"previous_names":[],"tags_count":30,"template":false,"template_full_name":null,"purl":"pkg:github/NeuralEnsemble/libNeuroML","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/NeuralEnsemble%2FlibNeuroML","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/NeuralEnsemble%2FlibNeuroML/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/NeuralEnsemble%2FlibNeuroML/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/NeuralEnsemble%2FlibNeuroML/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/NeuralEnsemble","download_url":"https://codeload.github.com/NeuralEnsemble/libNeuroML/tar.gz/refs/heads/master","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/NeuralEnsemble%2FlibNeuroML/sbom","host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":263300194,"owners_count":23445196,"icon_url":"https://github.com/github.png","version":null,"created_at":"2022-05-30T11:31:42.601Z","updated_at":"2022-07-04T15:15:14.044Z","host_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub","repositories_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories","repository_names_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repository_names","owners_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners"}},"keywords":["neuroml","neuronal-models","python"],"created_at":"2025-06-07T18:07:13.440Z","updated_at":"2025-07-03T09:31:21.556Z","avatar_url":"https://github.com/NeuralEnsemble.png","language":"Python","funding_links":[],"categories":[],"sub_categories":[],"readme":"## Introduction\n\n[![GH Build](https://github.com/NeuralEnsemble/libNeuroML/actions/workflows/ci.yml/badge.svg)](https://github.com/NeuralEnsemble/libNeuroML/actions/workflows/ci.yml)\n[![Documentation Status](https://readthedocs.org/projects/libneuroml/badge/?version=latest)](https://libneuroml.readthedocs.io/en/latest/?badge=latest)\n[![PyPI](https://img.shields.io/pypi/v/libNeuroML)](https://pypi.org/project/libNeuroML/)\n[![PyPI - Python Version](https://img.shields.io/pypi/pyversions/libNeuroML)](https://pypi.org/project/libNeuroML/)\n[![GitHub](https://img.shields.io/github/license/NeuralEnsemble/libNeuroML)](https://github.com/NeuralEnsemble/libNeuroML/blob/master/LICENSE)\n[![GitHub pull requests](https://img.shields.io/github/issues-pr/NeuralEnsemble/libNeuroML)](https://github.com/NeuralEnsemble/libNeuroML/pulls)\n[![GitHub issues](https://img.shields.io/github/issues/NeuralEnsemble/libNeuroML)](https://github.com/NeuralEnsemble/libNeuroML/issues)\n[![GitHub Org's stars](https://img.shields.io/github/stars/NeuralEnsemble?style=social)](https://github.com/NeuralEnsemble)\n[![Twitter Follow](https://img.shields.io/twitter/follow/NeuroML?style=social)](https://twitter.com/NeuroML)\n[![Gitter](https://badges.gitter.im/NeuroML/community.svg)](https://gitter.im/NeuroML/community?utm_source=badge\u0026utm_medium=badge\u0026utm_campaign=pr-badge)\n\nThis package provides Python libNeuroML, for working with neuronal models specified in [NeuroML 2](http://neuroml.org/neuromlv2).\n\nFor more about libNeuroML see:\n\nMichael Vella, Robert C. Cannon, Sharon Crook, Andrew P. Davison, Gautham Ganapathy, Hugh P. C. Robinson, R. Angus Silver and Padraig Gleeson,\n**libNeuroML and PyLEMS: using Python to combine procedural and declarative modeling approaches in computational neuroscience**\n[Frontiers in Neuroinformatics 2014](http://journal.frontiersin.org/Journal/10.3389/fninf.2014.00038/abstract), doi: 10.3389/fninf.2014.00038\n\n_**PLEASE CITE THE PAPER ABOVE IF YOU USE libNeuroML!**_\n\nDocumentation is available at http://readthedocs.org/docs/libneuroml/en/latest/\n\nFor installation instructions, see http://readthedocs.org/docs/libneuroml/en/latest/install.html\n\nFor an overview of all NeuroML related libraries/documentation/publications see https://docs.neuroml.org\n\n## pyNeuroML\n\nA related package, **[pyNeuroML](https://github.com/NeuroML/pyNeuroML)** builds on this and provides functionality, scripts and modules for reading, writing, **simulating** and analysing NeuroML2/LEMS models.\n\npyNeuroML builds on: [libNeuroML](https://github.com/NeuralEnsemble/libNeuroML) \u0026 [PyLEMS](https://github.com/LEMS/pylems) and wraps functionality from [jNeuroML](https://github.com/NeuroML/jNeuroML).\n\n## Development process for libNeuroML\n\nMost of the work happens in the [development branch](https://github.com/NeuralEnsemble/libNeuroML/tree/development).\nThat branch is kept up to date with the development branches for [NeuroML 2](https://github.com/NeuroML/NeuroML2/tree/development) and related libraries.\nSee https://docs.neuroml.org/ for an overview of the various NeuroML libraries.\n\n## Changelog\n\nSee also https://github.com/NeuralEnsemble/libNeuroML/releases.\n\n### version 0.5.8\n\n- drop py3.7, add py3,12\n- fix loader to check for given path and fall back to relative path\n- extend `get_segment_groups_from_substring` to also include an `unbranched` filter\n- more type hint/doc fixes\n\n### version 0.5.7\n\n- more documentation for writes/loaders\n\n### version 0.5.6\n\n- documentation fixes to writer modules\n\n### version 0.5.5\n\n- update schema, changes for NML 2.3 release\n\n### version 0.5.4\n\n- use natsort to improve sorting of segments/groups when optimising\n\n### version 0.5.3\n\n- add links to schema documentation\n- move from legacy setup.py to pyproject.toml build system\n\n### version 0.5.2\n\n- explicitly depend on numpy\n\n### version 0.5.1\n\n- updates to GHA\n\n### version 0.5.0\n\n- enable CI on py3.11\n- fix to loaders\n- format code with black\n- add graph representation for morphology, and methods to calculate distances b/w segments\n\n### version 0.4.1\n\n- add multiple cell builder utility functions\n- performance improvements in generic helper functions\n- documentation fixes/improvements\n- add type annotations to all nml classes to aid users\n- add level 1 validation method\n- add generic component inspection methods\n\n### version 0.4.0\n\n- update to use schema version 2.3\n- drop python 2 support\n\n### version 0.3.1\n\n- include schema documentation in generated `nml.py` API\n- introduce generic methods to add child/children elements to components\n\n### version 0.2.58\n\n- multiple documentation fixes\n\n### version 0.2.57\n\n- Enable Python 3.10 support\n- Regenerate nml.py with generateDS using Python 3\n- Add generic `add` method to all NeuroML ComponentType classes that allows users to easily construct their NeuroML documents.\n- Improve unit tests\n- DEPRECATION notice: `append_to_element` will be deprecated in future releases, please use the `add` method instead\n\n### version 0.2.56\n\n- Documentation updates for RTD and other minor fixes.\n\n### version 0.2.55\n\n- Patch release with minor changes under the hood.\n- Use PyTest for testing.\n- Enable CI on GitHub Actions\n\n### version 0.2.54\n\n- Using Schema for NeuroML v2.1. Better compatibility with Python 3\n\n### version 0.2.50\n\n- Updated to use the final stable Schema for NeuroML v2.0\n\n### version 0.2.47\n\n- Updated to use the final stable Schema for NeuroML v2beta5\n\n### version 0.2.18\n\n- Updated to use the final stable Schema for NeuroML v2beta4\n- Tested with Python 3\n\n### version 0.2.4\n\n- Updated to use the Schema for NeuroML v2beta4\n\n### version 0.2.2\n\n- Updated to use the Schema for NeuroML v2beta3\n- Ensures numpy \u0026 pytables are only required when using non-XML loaders/writers\n\n### version 0.2.0\n\n- Updated to use the Schema for NeuroML v2beta2\n\n### version 0.1.9\n\n- Minor release: Update to latest schema\n\n### version 0.1.8\n\n- Several Bug fixes and small enhamcements\n- Support for latest NeuroML schema (see change outline)\n- JSON serialization\n- MongoDB backend\n- HDF5 serialization\n- Improved installation process\n- All usage examples are now run on the Travis-CI continuous integration server to confirm that that they do not error.\n- Schema validation utility\n- Improved documentation and documentation new look\n\n:copyright: Copyright 2023 by the libNeuroML team, see [AUTHORS](AUTHORS). Modified BSD License, see [LICENSE](LICENSE) for details.\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fneuralensemble%2Flibneuroml","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fneuralensemble%2Flibneuroml","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fneuralensemble%2Flibneuroml/lists"}