spacr 0.0.1__tar.gz

spacr-0.0.1/LICENSE

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+The MIT License (MIT)
+
+Copyright (c) <year> Adam Veldhousen
+
+Permission is hereby granted, free of charge, to any person obtaining a copy
+of this software and associated documentation files (the "Software"), to deal
+in the Software without restriction, including without limitation the rights
+to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
+copies of the Software, and to permit persons to whom the Software is
+furnished to do so, subject to the following conditions:
+
+The above copyright notice and this permission notice shall be included in
+all copies or substantial portions of the Software.
+
+THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
+IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
+FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
+AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
+LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
+OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN
+THE SOFTWARE.

spacr-0.0.1/PKG-INFO

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+Metadata-Version: 2.1
+Name: spacr
+Version: 0.0.1
+Summary: A brief description of your package
+Home-page: https://github.com/EinarOlafsson/spacr
+Author: Einar Birnir Olafsson
+Author-email: olafsson@med.umich.com
+Classifier: Programming Language :: Python :: 3
+Classifier: License :: OSI Approved :: MIT License
+Classifier: Operating System :: OS Independent
+License-File: LICENSE
+Requires-Dist: torch
+Requires-Dist: torchvision
+Requires-Dist: numpy
+Requires-Dist: pandas
+Requires-Dist: statsmodels
+Requires-Dist: scikit-image
+Requires-Dist: scikit-learn
+Requires-Dist: seaborn
+Requires-Dist: matplotlib
+Requires-Dist: pillow
+Requires-Dist: imageio
+Requires-Dist: scipy
+Requires-Dist: ipywidgets
+Requires-Dist: mahotas
+Requires-Dist: btrack
+Requires-Dist: trackpy
+Requires-Dist: cellpose
+Requires-Dist: IPython
+Requires-Dist: opencv-python-headless
+Requires-Dist: umap
+Requires-Dist: ttkthemes
+Provides-Extra: dev
+Requires-Dist: pytest>=3.9; extra == "dev"
+Provides-Extra: headless
+Requires-Dist: opencv-python-headless; extra == "headless"
+Provides-Extra: full
+Requires-Dist: opencv-python; extra == "full"
+
+# SPACR
+
+Morphological processing toolset
+
+## Installation
+
+Tkinter is need to run
+
+### Ubuntu
+
+`apt-get install pyton3-tk`
+
+
+## Running
+
+### Measuring 
+
+`measure_gui`
+
+pass `path/to/tif/images`
+
+```
+code
+block
+```

spacr-0.0.1/README.md

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+# SPACR
+
+Morphological processing toolset
+
+## Installation
+
+Tkinter is need to run
+
+### Ubuntu
+
+`apt-get install pyton3-tk`
+
+
+## Running
+
+### Measuring 
+
+`measure_gui`
+
+pass `path/to/tif/images`
+
+```
+code
+block
+```

spacr-0.0.1/setup.cfg

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+[egg_info]
+tag_build = 
+tag_date = 0
+

spacr-0.0.1/setup.py

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+from setuptools import setup, find_packages
+
+dependencies = [
+    'torch',
+    'torchvision',
+    'numpy',
+    'pandas',
+    'statsmodels',
+    'scikit-image',
+    'scikit-learn',
+    'seaborn',
+    'matplotlib',
+    'pillow',
+    'imageio',
+    'scipy',
+    'ipywidgets',
+    'mahotas',
+    'btrack',
+    'trackpy',
+    'cellpose',
+    'IPython',
+    'opencv-python-headless',
+    'umap',
+    'ttkthemes'
+]
+
+setup(
+    name="spacr",
+    version="0.0.1",
+    author="Einar Birnir Olafsson",
+    author_email="olafsson@med.umich.com",
+    description="A brief description of your package",
+    long_description=open('README.md').read(),
+    url="https://github.com/EinarOlafsson/spacr",
+    packages=find_packages(exclude=["tests.*", "tests"]),
+    install_requires=dependencies,
+    entry_points={
+        'console_scripts': [
+            'gui_mask=spacr.gui_mask_app:gui_mask',
+            'gui_measure=spacr.gui_measure_app:gui_measure',
+            'gui_make_masks=spacr.mask_app:gui_make_masks',
+            'gui_annotation=spacr.annotate_app:gui_annotation',
+        ],
+    },
+    extras_require={
+        'dev': ['pytest>=3.9'],
+        'headless': ['opencv-python-headless'],
+        'full': ['opencv-python'],
+    },
+    classifiers=[
+        "Programming Language :: Python :: 3",
+        "License :: OSI Approved :: MIT License",
+        "Operating System :: OS Independent",
+    ],
+)
+

spacr-0.0.1/spacr/__init__.py

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+from spacr.version import version, version_str
+import logging
+
+from . import core
+from . import io
+from . import utils
+from . import plot
+from . import measure
+from . import sim
+from . import timelapse
+from . import train
+from . import mask_app
+from . import annotate_app
+from . import gui_utils
+from . import gui_mask_app
+from . import gui_measure_app
+from . import logger
+
+__all__ = [
+    "core",
+    "io",
+    "utils",
+    "plot",
+    "measure",
+    "sim",
+    "timelapse",
+    "train",
+    "annotate_app",
+    "gui_utils",
+    "mask_app",
+    "gui_mask_app",
+    "gui_measure_app",
+    "logger"
+]
+
+logging.basicConfig(filename='spacr.log', level=logging.INFO,
+                    format='%(asctime)s:%(levelname)s:%(message)s')

spacr-0.0.1/spacr/__main__.py

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+"""
+Copyright © 2024 Something
+"""
+
+import sys, os, glob, pathlib, time
+import numpy as np
+from natsort import natsorted
+from tqdm import tqdm
+#from spacr import utils, io, version, timelapse, plot, core, mask_app, annotate_app
+import logging
+
+
+
+if __name__ == "__main__":
+    main()