{"name":"napari-imagej","display_name":"napari-imagej","visibility":"public","icon":"","categories":[],"schema_version":"0.2.0","on_activate":null,"on_deactivate":null,"contributions":{"commands":[{"id":"napari-imagej.func","title":"Run ImageJ2 commands","python_name":"napari_imagej.widgets.napari_imagej:NapariImageJWidget","short_title":null,"category":null,"icon":null,"enablement":null},{"id":"napari-imagej.get_trackmate_reader","title":"Open TrackMate XML","python_name":"napari_imagej.readers.trackMate_reader:napari_get_reader","short_title":null,"category":null,"icon":null,"enablement":null}],"readers":[{"command":"napari-imagej.get_trackmate_reader","filename_patterns":["*.xml"],"accepts_directories":false}],"writers":null,"widgets":[{"command":"napari-imagej.func","display_name":"ImageJ2","autogenerate":false}],"sample_data":null,"themes":null,"menus":{},"submenus":null,"keybindings":null,"configuration":[]},"package_metadata":{"metadata_version":"2.1","name":"napari-imagej","version":"0.1.0","dynamic":null,"platform":null,"supported_platform":null,"summary":"ImageJ functionality from napari","description":"# napari-imagej\n\n### A [napari] plugin for access to [ImageJ2]\n\n[![License](https://img.shields.io/pypi/l/napari-imagej.svg?color=green)](https://github.com/imagej/napari-imagej/raw/main/LICENSE)\n[![PyPI](https://img.shields.io/pypi/v/napari-imagej.svg?color=green)](https://pypi.org/project/napari-imagej)\n[![Python Version](https://img.shields.io/pypi/pyversions/napari-imagej.svg?color=green)](https://python.org)\n[![tests](https://github.com/imagej/napari-imagej/workflows/tests/badge.svg)](https://github.com/imagej/napari-imagej/actions)\n[![codecov](https://codecov.io/gh/imagej/napari-imagej/branch/main/graph/badge.svg)](https://codecov.io/gh/imagej/napari-imagej)\n[![napari hub](https://img.shields.io/endpoint?url=https://api.napari-hub.org/shields/napari-imagej)](https://napari-hub.org/plugins/napari-imagej)\n\n**napari-imagej** aims to provide access to all [ImageJ2] functionality through the [napari] graphical user interface. It builds on the foundation of [PyImageJ], a project allowing ImageJ2 access from Python.\n\n**With napari-imagej, you can access:**\n\n1. The napari-imagej widget, providing *headless access* to:\n   * [ImageJ2 Commands] - 100+ image processing algorithms\n   * [ImageJ Ops] - 500+ *functional* image processing algorithms\n   * [SciJava Scripts] - migrated from Fiji or ImageJ2, or written yourself!\n2. The ImageJ user interface, providing access to *the entire ImageJ ecosystem* within napari.\n\nSee the [project roadmap](https://github.com/orgs/imagej/projects/2) for future directions.\n\n## Getting Started\n\nLearn more about the project [here](https://napari-imagej.readthedocs.io/en/0.1.0/), or jump straight to [installation](https://napari-imagej.readthedocs.io/en/0.1.0/Install.html)!\n\n## Usage\n\n* [Image Processing with ImageJ Ops](https://napari-imagej.readthedocs.io/en/0.1.0/examples/ops.html)\n* [Puncta Segmentation with SciJava Scripts](https://napari-imagej.readthedocs.io/en/0.1.0/examples/scripting.html)\n\n## Troubleshooting\n\nThe [FAQ](https://napari-imagej.readthedocs.io/en/0.1.0/Troubleshooting.html) outlines solutions to many common issues.\n\nFor more obscure issues, feel free to reach out on [forum.image.sc](https://forum.image.sc).\n\nIf you've found a bug, please [file an issue]!\n\n## Contributing\n\nWe welcome any and all contributions made onto the napari-imagej repository.\n\nDevelopment discussion occurs on the [Image.sc Zulip chat](https://imagesc.zulipchat.com/#narrow/stream/328100-scyjava).\n\nFor technical details involved with contributing, please see [here](https://napari-imagej.readthedocs.io/en/0.1.0/Development.html)\n\n## License\n\nDistributed under the terms of the [BSD-2] license,\n\"napari-imagej\" is free and open source software.\n\n\n[Apache Software License 2.0]: https://www.apache.org/licenses/LICENSE-2.0\n[black]: https://github.com/psf/black\n[BSD-2]: https://opensource.org/licenses/BSD-2-Clause\n[Cookiecutter]: https://github.com/audreyr/cookiecutter\n[cookiecutter-napari-plugin]: https://github.com/napari/cookiecutter-napari-plugin\n[conda]: https://docs.conda.io/\n[conda-forge]: https://conda-forge.org/\n[file an issue]: https://github.com/imagej/napari-imagej/issues\n[flake8]: https://flake8.pycqa.org/\n[GNU GPL v3.0]: https://www.gnu.org/licenses/gpl-3.0.txt\n[GNU LGPL v3.0]: https://www.gnu.org/licenses/lgpl-3.0.txt\n[ImageJ2]: https://imagej.net/software/imagej2\n[ImageJ2 Commands]: https://github.com/imagej/imagej-plugins-commands\n[ImageJ Ops]: https://imagej.net/libs/imagej-ops\n[install mamba]: https://mamba.readthedocs.io/en/latest/installation.html\n[isort]: https://pycqa.github.io/isort/\n[mamba]: https://mamba.readthedocs.io/\n[MIT]: https://opensource.org/licenses/MIT\n[Mozilla Public License 2.0]: https://www.mozilla.org/media/MPL/2.0/index.txt\n[napari]: https://github.com/napari/napari\n[napari hub]: https://www.napari-hub.org/\n[npe2]: https://github.com/napari/npe2\n[pip]: https://pypi.org/project/pip/\n[pull request]: https://docs.github.com/en/pull-requests/collaborating-with-pull-requests/proposing-changes-to-your-work-with-pull-requests/about-pull-requests\n[PyImageJ]: https://github.com/imagej/pyimagej\n[PyPI]: https://pypi.org/\n[SciJava Scripts]: https://imagej.net/scripting\n[tox]: https://tox.readthedocs.io/\n","description_content_type":"text/markdown","keywords":"java,imagej,imagej2,fiji,napari","home_page":null,"download_url":null,"author":null,"author_email":"ImageJ2 developers <ctrueden@wisc.edu>","maintainer":null,"maintainer_email":null,"license":"BSD-2-Clause","classifier":["Development Status :: 4 - Beta","Intended Audience :: Developers","Intended Audience :: Science/Research","Framework :: napari","Programming Language :: Python :: 3 :: Only","Programming Language :: Python :: 3.8","Programming Language :: Python :: 3.9","Programming Language :: Python :: 3.10","Programming Language :: Python :: 3.11","Operating System :: Microsoft :: Windows","Operating System :: Unix","Operating System :: MacOS","License :: OSI Approved :: BSD License","Topic :: Scientific/Engineering","Topic :: Scientific/Engineering :: Image Processing","Topic :: Scientific/Engineering :: Visualization","Topic :: Software Development :: Libraries :: Java Libraries","Topic :: Software Development :: Libraries :: Python Modules"],"requires_dist":["confuse","imglyb (>=2.1.0)","jpype1 (>=1.4.1)","labeling (>=0.1.12)","magicgui (>=0.5.1)","napari (>=0.4.17)","numpy","pandas","pyimagej (>=1.4.1)","scyjava (>=1.8.1)","qtconsole (!=5.4.2)","typing-extensions (!=4.6.0)","autopep8 ; extra == 'dev'","black (>=23.1.0) ; extra == 'dev'","build ; extra == 'dev'","flake8 ; extra == 'dev'","flake8-pyproject ; extra == 'dev'","flake8-typing-imports ; extra == 'dev'","isort ; extra == 'dev'","myst-parser ; extra == 'dev'","pre-commit ; extra == 'dev'","pyqt5 ; extra == 'dev'","pytest ; extra == 'dev'","pytest-cov ; extra == 'dev'","pytest-env ; extra == 'dev'","pytest-qt ; extra == 'dev'","sphinx ; extra == 'dev'","sphinx-copybutton ; extra == 'dev'","sphinx-rtd-theme ; extra == 'dev'","qtpy ; extra == 'dev'","validate-pyproject[all] ; extra == 'dev'"],"requires_python":"<=3.11.0,>=3.8","requires_external":null,"project_url":["homepage, https://github.com/imagej/napari-imagej","documentation, https://github.com/imagej/napari-imagej#README.md","source, https://github.com/imagej/napari-imagej","download, https://pypi.org/project/napari-imagej/","tracker, https://github.com/imagej/napari-imagej/issues"],"provides_extra":["dev"],"provides_dist":null,"obsoletes_dist":null},"npe1_shim":false}