CellProfiler-nightly 5.0.0.dev65__tar.gz

cellprofiler_nightly-5.0.0.dev65/CellProfiler_nightly.egg-info/PKG-INFO

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+Metadata-Version: 2.1
+Name: CellProfiler-nightly
+Version: 5.0.0.dev65
+Summary: CellProfiler is a free open-source software designed to enable biologists without training in computer vision or programming to quantitatively measure phenotypes from thousands of images automatically.
+Author: Anne Carpenter, Thouis (Ray) Jones, Lee Kamentsky, Vebjorn Ljosa, David Logan, Mark Bray, Madison Swain-Bowden, Allen Goodman, Claire McQuinn, Alice Lucas, Callum Tromans-Coia
+Author-email: Beth Cimini <bcimini@broadinstitute.org>, David Stirling <dstirling@glencoesoftware.com>, Nodar Gogoberidze <ngogober@broadinstitute.org>
+Maintainer-email: Beth Cimini <bcimini@broadinstitute.org>, Nodar Gogoberidze <ngogober@broadinstitute.org>
+License: The BSD 3-Clause License
+        
+        Copyright © 2003 - 2021 Broad Institute, Inc. All rights reserved.
+        
+        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 Broad Institute, Inc. 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 “AS IS.”  BROAD MAKES NO EXPRESS OR IMPLIED
+        REPRESENTATIONS OR WARRANTIES OF ANY KIND REGARDING THE SOFTWARE AND
+        COPYRIGHT, INCLUDING, BUT NOT LIMITED TO, WARRANTIES OF MERCHANTABILITY,
+        FITNESS FOR A PARTICULAR PURPOSE, CONFORMITY WITH ANY DOCUMENTATION,
+        NON-INFRINGEMENT, OR THE ABSENCE OF LATENT OR OTHER DEFECTS, WHETHER OR NOT
+        DISCOVERABLE. IN NO EVENT SHALL BROAD, THE COPYRIGHT HOLDERS, 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, HAVE REASON TO KNOW, OR IN
+        FACT SHALL KNOW OF THE POSSIBILITY OF SUCH DAMAGE.
+        
+        If, by operation of law or otherwise, any of the aforementioned warranty
+        disclaimers are determined inapplicable, your sole remedy, regardless of the
+        form of action, including, but not limited to, negligence and strict
+        liability, shall be replacement of the software with an updated version if one
+        exists.
+        
+        Development of CellProfiler has been funded in whole or in part with federal
+        funds from the National Institutes of Health, the National Science Foundation,
+        and the Human Frontier Science Program.
+        
+Project-URL: Homepage, https://cellprofiler.org/
+Project-URL: Documentation, https://cellprofiler.org/manuals
+Project-URL: Wiki, https://github.com/CellProfiler/CellProfiler/wiki
+Project-URL: Repository, https://github.com/CellProfiler/CellProfiler
+Project-URL: Issues, https://github.com/CellProfiler/CellProfiler/issues
+Project-URL: Changelog, https://github.com/CellProfiler/CellProfiler/releases
+Keywords: computer vision,image analysis,biology,cell,cellprofiler
+Classifier: Development Status :: 5 - Production/Stable
+Classifier: Intended Audience :: Science/Research
+Classifier: License :: OSI Approved :: BSD License
+Classifier: Operating System :: OS Independent
+Classifier: Programming Language :: Python :: 3.9
+Classifier: Topic :: Scientific/Engineering :: Bio-Informatics
+Classifier: Topic :: Scientific/Engineering :: Image Recognition
+Classifier: Topic :: Scientific/Engineering :: Image Processing
+Classifier: Topic :: Scientific/Engineering
+Requires-Python: >=3.9
+Description-Content-Type: text/markdown
+License-File: LICENSE
+Requires-Dist: cellprofiler-library-nightly>=5.dev
+Requires-Dist: cellprofiler-core-nightly>=5.dev
+Requires-Dist: boto3~=1.28.41
+Requires-Dist: centrosome==1.2.2
+Requires-Dist: docutils==0.15.2
+Requires-Dist: h5py~=3.6.0
+Requires-Dist: imageio~=2.31.3
+Requires-Dist: inflect~=7.0.0
+Requires-Dist: Jinja2~=3.1.2
+Requires-Dist: joblib~=1.3.2
+Requires-Dist: mahotas~=1.4.13
+Requires-Dist: matplotlib<4,>=3.1.3
+Requires-Dist: mysqlclient~=2.2.3
+Requires-Dist: numpy~=1.24.4
+Requires-Dist: Pillow~=10.0.0
+Requires-Dist: pyzmq~=22.3.0
+Requires-Dist: sentry-sdk<=1.31.0,>=0.18.0
+Requires-Dist: requests~=2.31.0
+Requires-Dist: scikit-image~=0.20.0
+Requires-Dist: scikit-learn~=1.3.0
+Requires-Dist: scipy<1.11,>=1.9.1
+Requires-Dist: scyjava>=1.9.1
+Requires-Dist: six~=1.16.0
+Requires-Dist: tifffile<2022.4.22,>=2022.4.8
+Requires-Dist: wxPython==4.2.0
+Requires-Dist: rapidfuzz~=3.0.0
+Requires-Dist: packaging>=20.0
+Provides-Extra: build
+Requires-Dist: build; extra == "build"
+Requires-Dist: pyinstaller; extra == "build"
+Requires-Dist: twine; extra == "build"
+Provides-Extra: docs
+Requires-Dist: sphinx>=3.1.1; extra == "docs"
+Requires-Dist: sphinx-rtd-theme>=0.5.0; extra == "docs"
+Provides-Extra: test
+Requires-Dist: pytest~=7.4.1; extra == "test"
+Requires-Dist: pooch>=1.3.0; extra == "test"
+
+# frontend
+
+This codebase contains the code to build the `cellprofiler` package. It contains modules that implement the GUI interface, the CLI interface, and others that are non-essential to the functioning of the [CellProfiler](cellprofiler.org) software. The [subpackages](../subpackages/) are necessary dependencies for the functioning of `cellprofiler`.

cellprofiler_nightly-5.0.0.dev65/CellProfiler_nightly.egg-info/SOURCES.txt

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+LICENSE
+README.md
+environment.yml
+pyproject.toml
+CellProfiler_nightly.egg-info/PKG-INFO
+CellProfiler_nightly.egg-info/SOURCES.txt
+CellProfiler_nightly.egg-info/dependency_links.txt
+CellProfiler_nightly.egg-info/entry_points.txt
+CellProfiler_nightly.egg-info/requires.txt
+CellProfiler_nightly.egg-info/top_level.txt
+cellprofiler/__init__.py
+cellprofiler/__main__.py
+cellprofiler/_version.py
+cellprofiler/knime_bridge.py
+cellprofiler/misc.py
+cellprofiler/data/examples/ExampleFly/ExampleFly.cppipe
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+cellprofiler/data/examples/ExampleFly/images/01_POS218_R.TIF
+cellprofiler/data/help/display_image_tools.rst
+cellprofiler/data/help/display_interactive_navigation.rst
+cellprofiler/data/help/display_menu_bar.rst
+cellprofiler/data/help/legacy_matlab_image.rst
+cellprofiler/data/help/navigation_edit_menu.rst
+cellprofiler/data/help/navigation_file_menu.rst
+cellprofiler/data/help/navigation_test_menu.rst
+cellprofiler/data/help/navigation_window_menu.rst
+cellprofiler/data/help/other_3d_identify.rst
+cellprofiler/data/help/other_batch.rst
+cellprofiler/data/help/other_logging.rst
+cellprofiler/data/help/other_omero.rst
+cellprofiler/data/help/other_plugins.rst
+cellprofiler/data/help/other_shell.rst
+cellprofiler/data/help/other_troubleshooting.rst
+cellprofiler/data/help/other_widget_inspector.rst
+cellprofiler/data/help/output_measurements.rst
+cellprofiler/data/help/output_plateviewer.rst
+cellprofiler/data/help/output_spreadsheets.rst
+cellprofiler/data/help/pipelines_building.rst
+cellprofiler/data/help/pipelines_running.rst
+cellprofiler/data/help/projects_configure_images.rst
+cellprofiler/data/help/projects_image_ordering.rst
+cellprofiler/data/help/projects_image_sequences.rst
+cellprofiler/data/help/projects_introduction.rst
+cellprofiler/data/help/projects_selecting_images.rst
+cellprofiler/data/help/why_use_cellprofiler.rst
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+cellprofiler/data/images/ColorToGray.png
+cellprofiler/data/images/CorrectIlluminationApply.png
+cellprofiler/data/images/CorrectIlluminationCalculate.png
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+cellprofiler/data/images/ExpandTree.png
+cellprofiler/data/images/GrayToColor.png
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+cellprofiler/gui/_workspace_model.py
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+cellprofiler/gui/app.py
+cellprofiler/gui/artist.py
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+cellprofiler/gui/errordialog.py
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+cellprofiler/gui/omerologin.py
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+cellprofiler/modules/identifysecondaryobjects.py
+cellprofiler/modules/identifytertiaryobjects.py
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+cellprofiler/modules/measuregranularity.py
+cellprofiler/modules/measureimageareaoccupied.py
+cellprofiler/modules/measureimageintensity.py
+cellprofiler/modules/measureimageoverlap.py
+cellprofiler/modules/measureimagequality.py
+cellprofiler/modules/measureimageskeleton.py
+cellprofiler/modules/measureobjectintensity.py
+cellprofiler/modules/measureobjectintensitydistribution.py
+cellprofiler/modules/measureobjectneighbors.py
+cellprofiler/modules/measureobjectoverlap.py
+cellprofiler/modules/measureobjectsizeshape.py
+cellprofiler/modules/measureobjectskeleton.py
+cellprofiler/modules/measuretexture.py
+cellprofiler/modules/medialaxis.py
+cellprofiler/modules/medianfilter.py
+cellprofiler/modules/morph.py
+cellprofiler/modules/morphologicalskeleton.py
+cellprofiler/modules/opening.py
+cellprofiler/modules/overlayobjects.py
+cellprofiler/modules/overlayoutlines.py
+cellprofiler/modules/reducenoise.py
+cellprofiler/modules/relateobjects.py
+cellprofiler/modules/removeholes.py
+cellprofiler/modules/rescaleintensity.py
+cellprofiler/modules/resize.py
+cellprofiler/modules/resizeobjects.py
+cellprofiler/modules/runimagejmacro.py
+cellprofiler/modules/savecroppedobjects.py
+cellprofiler/modules/saveimages.py
+cellprofiler/modules/shrinktoobjectcenters.py
+cellprofiler/modules/smooth.py
+cellprofiler/modules/splitormergeobjects.py
+cellprofiler/modules/straightenworms.py
+cellprofiler/modules/threshold.py
+cellprofiler/modules/tile.py
+cellprofiler/modules/trackobjects.py
+cellprofiler/modules/unmixcolors.py
+cellprofiler/modules/untangleworms.py
+cellprofiler/modules/watershed.py
+cellprofiler/modules/plugins/__init__.py
+cellprofiler/modules/plugins/imagetemplate.py
+cellprofiler/modules/plugins/measurementtemplate.py
+cellprofiler/utilities/__init__.py
+cellprofiler/utilities/morphology.py
+cellprofiler/utilities/rules.py

cellprofiler_nightly-5.0.0.dev65/CellProfiler_nightly.egg-info/dependency_links.txt

@@ -0,0 +1 @@
+

cellprofiler_nightly-5.0.0.dev65/CellProfiler_nightly.egg-info/entry_points.txt

@@ -0,0 +1,2 @@
+[console_scripts]
+cellprofiler = cellprofiler.__main__:main

cellprofiler_nightly-5.0.0.dev65/CellProfiler_nightly.egg-info/requires.txt

@@ -0,0 +1,40 @@
+cellprofiler-library-nightly>=5.dev
+cellprofiler-core-nightly>=5.dev
+boto3~=1.28.41
+centrosome==1.2.2
+docutils==0.15.2
+h5py~=3.6.0
+imageio~=2.31.3
+inflect~=7.0.0
+Jinja2~=3.1.2
+joblib~=1.3.2
+mahotas~=1.4.13
+matplotlib<4,>=3.1.3
+mysqlclient~=2.2.3
+numpy~=1.24.4
+Pillow~=10.0.0
+pyzmq~=22.3.0
+sentry-sdk<=1.31.0,>=0.18.0
+requests~=2.31.0
+scikit-image~=0.20.0
+scikit-learn~=1.3.0
+scipy<1.11,>=1.9.1
+scyjava>=1.9.1
+six~=1.16.0
+tifffile<2022.4.22,>=2022.4.8
+wxPython==4.2.0
+rapidfuzz~=3.0.0
+packaging>=20.0
+
+[build]
+build
+pyinstaller
+twine
+
+[docs]
+sphinx>=3.1.1
+sphinx-rtd-theme>=0.5.0
+
+[test]
+pytest~=7.4.1
+pooch>=1.3.0

cellprofiler_nightly-5.0.0.dev65/CellProfiler_nightly.egg-info/top_level.txt

@@ -0,0 +1 @@
+cellprofiler

cellprofiler_nightly-5.0.0.dev65/LICENSE

@@ -0,0 +1,41 @@
+The BSD 3-Clause License
+
+Copyright © 2003 - 2021 Broad Institute, Inc. All rights reserved.
+
+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 Broad Institute, Inc. 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 “AS IS.”  BROAD MAKES NO EXPRESS OR IMPLIED
+REPRESENTATIONS OR WARRANTIES OF ANY KIND REGARDING THE SOFTWARE AND
+COPYRIGHT, INCLUDING, BUT NOT LIMITED TO, WARRANTIES OF MERCHANTABILITY,
+FITNESS FOR A PARTICULAR PURPOSE, CONFORMITY WITH ANY DOCUMENTATION,
+NON-INFRINGEMENT, OR THE ABSENCE OF LATENT OR OTHER DEFECTS, WHETHER OR NOT
+DISCOVERABLE. IN NO EVENT SHALL BROAD, THE COPYRIGHT HOLDERS, 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, HAVE REASON TO KNOW, OR IN
+FACT SHALL KNOW OF THE POSSIBILITY OF SUCH DAMAGE.
+
+If, by operation of law or otherwise, any of the aforementioned warranty
+disclaimers are determined inapplicable, your sole remedy, regardless of the
+form of action, including, but not limited to, negligence and strict
+liability, shall be replacement of the software with an updated version if one
+exists.
+
+Development of CellProfiler has been funded in whole or in part with federal
+funds from the National Institutes of Health, the National Science Foundation,
+and the Human Frontier Science Program.