{"name":"napari-biomag-annotator","display_name":"BIOMAG Annotator","visibility":"public","icon":"","categories":["Annotation","Segmentation","Acquisition"],"schema_version":"0.2.0","on_activate":null,"on_deactivate":null,"contributions":{"commands":[{"id":"napari-biomag-annotator.get_reader","title":"Open data with BIOMAG Annotator","python_name":"napari_biomag_annotator._reader:napari_get_reader","short_title":null,"category":null,"icon":null,"enablement":null},{"id":"napari-biomag-annotator.write_multiple","title":"Save multi-layer data with BIOMAG Annotator","python_name":"napari_biomag_annotator._writer:write_multiple","short_title":null,"category":null,"icon":null,"enablement":null},{"id":"napari-biomag-annotator.write_single_image","title":"Save image data with BIOMAG Annotator","python_name":"napari_biomag_annotator._writer:write_single_image","short_title":null,"category":null,"icon":null,"enablement":null},{"id":"napari-biomag-annotator.BIOMAGAnnotator","title":"napari-biomag-annotator","python_name":"napari_biomag_annotator:BIOMAGAnnotator","short_title":null,"category":null,"icon":null,"enablement":null}],"readers":[{"command":"napari-biomag-annotator.get_reader","filename_patterns":["*.npy"],"accepts_directories":false}],"writers":[{"command":"napari-biomag-annotator.write_multiple","layer_types":["image*","labels*"],"filename_extensions":[],"display_name":""},{"command":"napari-biomag-annotator.write_single_image","layer_types":["image"],"filename_extensions":[".npy"],"display_name":""}],"widgets":[{"command":"napari-biomag-annotator.BIOMAGAnnotator","display_name":"napari-biomag-annotator","autogenerate":false}],"sample_data":null,"themes":null,"menus":{},"submenus":null,"keybindings":null,"configuration":[]},"package_metadata":{"metadata_version":"2.1","name":"napari-biomag-annotator","version":"0.0.3","dynamic":null,"platform":null,"supported_platform":null,"summary":"An annotator tool collection by the BIOMAG group.","description":"# napari-biomag-annotator\n\n[![License BSD-3](https://img.shields.io/pypi/l/napari-biomag-annotator.svg?color=green)](https://github.com/biomag-lab/napari-biomag-annotator/raw/main/LICENSE)\n[![PyPI](https://img.shields.io/pypi/v/napari-biomag-annotator.svg?color=green)](https://pypi.org/project/napari-biomag-annotator)\n[![Python Version](https://img.shields.io/pypi/pyversions/napari-biomag-annotator.svg?color=green)](https://python.org)\n[![tests](https://github.com/biomag-lab/napari-biomag-annotator/workflows/tests/badge.svg)](https://github.com/biomag-lab/napari-biomag-annotator/actions)\n[![codecov](https://codecov.io/gh/biomag-lab/napari-biomag-annotator/branch/main/graph/badge.svg)](https://codecov.io/gh/biomag-lab/napari-biomag-annotator)\n[![napari hub](https://img.shields.io/endpoint?url=https://api.napari-hub.org/shields/napari-biomag-annotator)](https://napari-hub.org/plugins/napari-biomag-annotator)\n\nAn annotator tool collection by the BIOMAG group.\n\nThis plugin allows object annotation on 2/3D images using 4 assisted annotation methods arising from two napari plugins:\n\n- [napari-annotatorj](https://github.com/spreka/napari-annotatorj)\n- [napari-nD-annotator](https://github.com/bauerdavid/napari-nD-annotator)\n\n----------------------------------\n\nThis [napari] plugin was generated with [Cookiecutter] using [@napari]'s [cookiecutter-napari-plugin] template.\n\n<!--\nDon't miss the full getting started guide to set up your new package:\nhttps://github.com/napari/cookiecutter-napari-plugin#getting-started\n\nand review the napari docs for plugin developers:\nhttps://napari.org/stable/plugins/index.html\n-->\n\n## Installation\n\nYou can install `napari-biomag-annotator` via [pip]:\n\n    pip install napari[all]\n    pip install napari-biomag-annotator\n\n\n\nTo install latest development version :\n\n    pip install git+https://github.com/biomag-lab/napari-biomag-annotator.git\n\n\nOn Linux distributions, the following error may arise upon napari startup after the installation of the plugin: `Could not load the Qt platform plugin “xcb” in “” even though it was found`. In this case, the manual install of `libxcb-xinerama0` for Qt is required:\n\n    sudo apt install libxcb-xinerama0\n\n### Bundled napari app\nThe bundled application version of [napari](https://github.com/napari/napari/releases) allows the pip install of plugins in the .zip distribution. After installation of this release, napari-annotatorj can be installed from the `Plugins --> Install/Uninstall plugins...` menu by searching for its name and clicking on the `Install` button next to it.\n\n### Script\nSingle-file install is supported on [**Windows**](#windows) and [Linux](#linux) (currently). It will create a virtual environment named `napariAnnotatorEnv` in the parent folder of the cloned repository, install the package via pip and start napari. It requires a valid Python install.\n\n#### Windows\nTo start it, run in the Command prompt\n\n    git clone https://github.com/biomag-lab/napari-biomag-annotator.git\n    cd napari-biomag-annotator\n    install.bat\n\nOr download [install.bat](https://github.com/biomag-lab/napari-biomag-annotator/blob/main/install.bat) and run it from the Command prompt.\n\nAfter install, you can use [startup_napari.bat](https://github.com/biomag-lab/napari-biomag-annotator/blob/main/startup_napari.bat) to activate your installed virtual environment and run napari. Run it from the Command prompt with:\n\n    startup_napari.bat\n\n\n#### Linux\nTo start it, run in the Terminal\n\n    git clone https://github.com/biomag-lab/napari-biomag-annotator.git\n    cd napari-annotatorj\n    install.sh\n\nOr download [install.sh](https://github.com/biomag-lab/napari-biomag-annotator/blob/main/install.sh) and run it from the Terminal.\n\nAfter install, you can use [startup_napari.sh](https://github.com/biomag-lab/napari-biomag-annotator/blob/main/startup_napari.sh) to activate your installed virtual environment and run napari. Run it from the Terminal with:\n\n    startup_napari.sh\n\n## Contributing\n\nContributions are very welcome. Tests can be run with [tox], please ensure\nthe coverage at least stays the same before you submit a pull request.\n\n## License\n\nDistributed under the terms of the [BSD-3] license,\n\"napari-biomag-annotator\" is free and open source software\n\n## Issues\n\nIf you encounter any problems, please [file an issue] along with a detailed description.\n\n[napari]: https://github.com/napari/napari\n[Cookiecutter]: https://github.com/audreyr/cookiecutter\n[@napari]: https://github.com/napari\n[MIT]: http://opensource.org/licenses/MIT\n[BSD-3]: http://opensource.org/licenses/BSD-3-Clause\n[GNU GPL v3.0]: http://www.gnu.org/licenses/gpl-3.0.txt\n[GNU LGPL v3.0]: http://www.gnu.org/licenses/lgpl-3.0.txt\n[Apache Software License 2.0]: http://www.apache.org/licenses/LICENSE-2.0\n[Mozilla Public License 2.0]: https://www.mozilla.org/media/MPL/2.0/index.txt\n[cookiecutter-napari-plugin]: https://github.com/napari/cookiecutter-napari-plugin\n\n[file an issue]: https://github.com/biomag-lab/napari-biomag-annotator/issues\n\n[napari]: https://github.com/napari/napari\n[tox]: https://tox.readthedocs.io/en/latest/\n[pip]: https://pypi.org/project/pip/\n[PyPI]: https://pypi.org/\n","description_content_type":"text/markdown","keywords":null,"home_page":"https://github.com/biomag-lab/napari-biomag-annotator","download_url":null,"author":"Reka Hollandi, David Bauer","author_email":"hunreka93@hotmail.com","maintainer":null,"maintainer_email":null,"license":"BSD-3-Clause","classifier":["Development Status :: 2 - Pre-Alpha","Framework :: napari","Intended Audience :: Developers","License :: OSI Approved :: BSD License","Operating System :: OS Independent","Programming Language :: Python","Programming Language :: Python :: 3","Programming Language :: Python :: 3 :: Only","Programming Language :: Python :: 3.8","Programming Language :: Python :: 3.9","Programming Language :: Python :: 3.10","Topic :: Scientific/Engineering :: Image Processing"],"requires_dist":["napari","napari-plugin-engine >=0.1.4","napari-annotatorj","napari-nD-annotator","tox ; extra == 'testing'","pytest ; extra == 'testing'","pytest-cov ; extra == 'testing'","pytest-qt ; extra == 'testing'","napari ; extra == 'testing'","pyqt5 ; extra == 'testing'"],"requires_python":">=3.8","requires_external":null,"project_url":["Bug Tracker, https://github.com/biomag-lab/napari-biomag-annotator/issues","Documentation, https://github.com/biomag-lab/napari-biomag-annotator#README.md","Source Code, https://github.com/biomag-lab/napari-biomag-annotator","User Support, https://github.com/biomag-lab/napari-biomag-annotator/issues"],"provides_extra":["testing"],"provides_dist":null,"obsoletes_dist":null},"npe1_shim":false}