epicure 0.1.3__tar.gz

epicure-0.1.3/LICENSE

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+BSD 3-Clause License
+
+Copyright (c) 2023, Gaëlle  LETORT
+
+Redistribution and use in source and binary forms, with or without
+modification, are permitted provided that the following conditions are met:
+
+1. Redistributions of source code must retain the above copyright notice, this
+   list of conditions and the following disclaimer.
+
+2. Redistributions in binary form must reproduce the above copyright notice,
+   this list of conditions and the following disclaimer in the documentation
+   and/or other materials provided with the distribution.
+
+3. Neither the name of the copyright holder nor the names of its
+   contributors may be used to endorse or promote products derived from
+   this software without specific prior written permission.
+
+THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS"
+AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE
+IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE
+DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE LIABLE
+FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL
+DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR
+SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER
+CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY,
+OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE
+OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.

epicure-0.1.3/MANIFEST.in

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+include LICENSE
+include README.md
+
+recursive-exclude * __pycache__
+recursive-exclude * *.py[co]

epicure-0.1.3/PKG-INFO

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+Metadata-Version: 2.1
+Name: epicure
+Version: 0.1.3
+Summary: Napari plugin to manually correct epithelia segmentation in movies
+Home-page: https://gitlab.pasteur.fr/gletort/epicure
+Author: Gaëlle Letort
+License: BSD-3-Clause
+Project-URL: Bug Tracker, https://gitlab.pasteur.fr/gletort/epicure/issues
+Project-URL: Documentation, https://gitlab.pasteur.fr/gletort/epicure#README.md
+Project-URL: Source Code, https://gitlab.pasteur.fr/gletort/epicure
+Project-URL: User Support, https://gitlab.pasteur.fr/gletort/epicure/issues
+Classifier: Development Status :: 2 - Pre-Alpha
+Classifier: Framework :: napari
+Classifier: Intended Audience :: Developers
+Classifier: License :: OSI Approved :: BSD License
+Classifier: Operating System :: OS Independent
+Classifier: Programming Language :: Python
+Classifier: Programming Language :: Python :: 3
+Classifier: Programming Language :: Python :: 3 :: Only
+Classifier: Programming Language :: Python :: 3.8
+Classifier: Programming Language :: Python :: 3.9
+Classifier: Programming Language :: Python :: 3.10
+Classifier: Topic :: Scientific/Engineering :: Image Processing
+Requires-Python: >=3.8
+Description-Content-Type: text/markdown
+License-File: LICENSE
+Requires-Dist: napari<=0.4.19
+Requires-Dist: numpy
+Requires-Dist: magicgui
+Requires-Dist: qtpy
+Requires-Dist: scikit-image
+Requires-Dist: opencv_python_headless
+Requires-Dist: roifile
+Requires-Dist: xlsxwriter
+Requires-Dist: laptrack
+Requires-Dist: matplotlib
+Requires-Dist: imagecodecs
+Requires-Dist: edt
+Provides-Extra: testing
+Requires-Dist: tox; extra == "testing"
+Requires-Dist: pytest; extra == "testing"
+Requires-Dist: pytest-cov; extra == "testing"
+Requires-Dist: pytest-qt; extra == "testing"
+Requires-Dist: napari; extra == "testing"
+Requires-Dist: pyqt5; extra == "testing"
+
+# EpiCure
+
+[![License BSD-3](https://img.shields.io/pypi/l/epicure.svg?color=green)](https://gitlab.pasteur.fr/gletort/epicure/raw/main/LICENSE)
+[![PyPI](https://img.shields.io/pypi/v/epicure.svg?color=green)](https://pypi.org/project/epicure)
+[![Python Version](https://img.shields.io/pypi/pyversions/epicure.svg?color=green)](https://python.org)
+[![napari hub](https://img.shields.io/endpoint?url=https://api.napari-hub.org/shields/epicure)](https://napari-hub.org/plugins/epicure)
+
+Napari plugin to manually correct epithelia segmentation in movies
+
+ > **Documentation in the [wiki](https://gitlab.pasteur.fr/gletort/epicure/-/wikis/EpiCure)**
+
+## Installation
+
+### Install plugin
+To install EpiCure on a fresh python virtual environment, type inside the environement:
+```
+pip install epicure
+``` 
+
+Then launch `Napari`, and the plugin should be visible in the `Plugins` list.
+
+If you already have an environment with `Napari` installed, you can also install it directly in `Napari>Plugins>Install/Uninstall plugins`
+
+### Install code
+To have the code to be able to modify it, clone this repository. You can use `pip install -e .` so that everytime you update the code, the plugin will be updated. 
+
+## Usage
+
+Refer to the [wiki](https://gitlab.pasteur.fr/gletort/epicure/-/wikis/EpiCure) for documentation of the different steps possible in the pipeline.
+
+
+
+This [napari] plugin was initialized with [Cookiecutter] using [@napari]'s [cookiecutter-napari-plugin] template.
+
+[napari]: https://github.com/napari/napari
+[Cookiecutter]: https://github.com/audreyr/cookiecutter
+[file an issue]: https://github.com/gletort/epicure/issues
+[tox]: https://tox.readthedocs.io/en/latest/
+[pip]: https://pypi.org/project/pip/
+[PyPI]: https://pypi.org/

epicure-0.1.3/README.md

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+# EpiCure
+
+[![License BSD-3](https://img.shields.io/pypi/l/epicure.svg?color=green)](https://gitlab.pasteur.fr/gletort/epicure/raw/main/LICENSE)
+[![PyPI](https://img.shields.io/pypi/v/epicure.svg?color=green)](https://pypi.org/project/epicure)
+[![Python Version](https://img.shields.io/pypi/pyversions/epicure.svg?color=green)](https://python.org)
+[![napari hub](https://img.shields.io/endpoint?url=https://api.napari-hub.org/shields/epicure)](https://napari-hub.org/plugins/epicure)
+
+Napari plugin to manually correct epithelia segmentation in movies
+
+ > **Documentation in the [wiki](https://gitlab.pasteur.fr/gletort/epicure/-/wikis/EpiCure)**
+
+## Installation
+
+### Install plugin
+To install EpiCure on a fresh python virtual environment, type inside the environement:
+```
+pip install epicure
+``` 
+
+Then launch `Napari`, and the plugin should be visible in the `Plugins` list.
+
+If you already have an environment with `Napari` installed, you can also install it directly in `Napari>Plugins>Install/Uninstall plugins`
+
+### Install code
+To have the code to be able to modify it, clone this repository. You can use `pip install -e .` so that everytime you update the code, the plugin will be updated. 
+
+## Usage
+
+Refer to the [wiki](https://gitlab.pasteur.fr/gletort/epicure/-/wikis/EpiCure) for documentation of the different steps possible in the pipeline.
+
+
+
+This [napari] plugin was initialized with [Cookiecutter] using [@napari]'s [cookiecutter-napari-plugin] template.
+
+[napari]: https://github.com/napari/napari
+[Cookiecutter]: https://github.com/audreyr/cookiecutter
+[file an issue]: https://github.com/gletort/epicure/issues
+[tox]: https://tox.readthedocs.io/en/latest/
+[pip]: https://pypi.org/project/pip/
+[PyPI]: https://pypi.org/

epicure-0.1.3/setup.cfg

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+[metadata]
+name = epicure
+version = 0.1.3
+description = Napari plugin to manually correct epithelia segmentation in movies
+long_description = file: README.md
+long_description_content_type = text/markdown
+url = https://gitlab.pasteur.fr/gletort/epicure
+author = Gaëlle Letort
+license = BSD-3-Clause
+license_files = LICENSE
+classifiers = 
+	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
+project_urls = 
+	Bug Tracker = https://gitlab.pasteur.fr/gletort/epicure/issues
+	Documentation = https://gitlab.pasteur.fr/gletort/epicure#README.md
+	Source Code = https://gitlab.pasteur.fr/gletort/epicure
+	User Support = https://gitlab.pasteur.fr/gletort/epicure/issues
+
+[options]
+packages = find:
+install_requires = 
+	napari <= 0.4.19
+	numpy
+	magicgui
+	qtpy
+	scikit-image
+	opencv_python_headless
+	roifile
+	xlsxwriter
+	laptrack
+	matplotlib
+	imagecodecs
+	edt
+python_requires = >=3.8
+include_package_data = True
+package_dir = 
+	=src
+
+[options.packages.find]
+where = src
+
+[options.entry_points]
+napari.manifest = 
+	epicure = epicure:napari.yaml
+
+[options.extras_require]
+testing = 
+	tox
+	pytest  # https://docs.pytest.org/en/latest/contents.html
+	pytest-cov  # https://pytest-cov.readthedocs.io/en/latest/
+	pytest-qt  # https://pytest-qt.readthedocs.io/en/latest/
+	napari
+	pyqt5
+
+[options.package_data]
+* = *.yaml
+
+[egg_info]
+tag_build = 
+tag_date = 0
+

epicure-0.1.3/setup.py

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+from setuptools import setup
+setup()