bluecellulab 2.5.0__tar.gz → 2.5.4__tar.gz

{bluecellulab-2.5.0 → bluecellulab-2.5.4}/.github/workflows/release.yml

@@ -36,8 +36,8 @@ jobs:
 
       - name: Build a source tarball and wheel
         run: |
-            pip install wheel
-            python setup.py sdist bdist_wheel
+            pip install build
+            python -m build --sdist --wheel .
 
       - name: Get and store tag from 'Bump version and push tag' step
         if: ${{ !startsWith(github.ref, 'refs/tags/') }}

{bluecellulab-2.5.0 → bluecellulab-2.5.4}/PKG-INFO

@@ -1,11 +1,12 @@
 Metadata-Version: 2.1
 Name: bluecellulab
-Version: 2.5.0
+Version: 2.5.4
 Summary: The Pythonic Blue Brain simulator access
-Home-page: https://github.com/BlueBrain/BlueCelluLab
 Author: Blue Brain Project, EPFL
 License: Apache2.0
-Keywords: computational neuroscience,simulation,analysis,parameters,Blue Brain Project
+Project-URL: Homepage, https://github.com/BlueBrain/BlueCelluLab
+Project-URL: Documentation, https://bluecellulab.readthedocs.io/
+Keywords: computational neuroscience,simulation,analysis,SONATA,neural networks,neuron,Blue Brain Project
 Classifier: Development Status :: 5 - Production/Stable
 Classifier: Environment :: Console
 Classifier: License :: OSI Approved :: Apache Software License
@@ -17,6 +18,14 @@ Requires-Python: >=3.8
 Description-Content-Type: text/x-rst
 License-File: LICENSE
 License-File: AUTHORS.txt
+Requires-Dist: NEURON<9.0.0,>=8.0.2
+Requires-Dist: numpy<2.0.0,>=1.8.0
+Requires-Dist: matplotlib<4.0.0,>=3.0.0
+Requires-Dist: pandas<3.0.0,>=1.0.0
+Requires-Dist: bluepysnap<4.0.0,>=3.0.0
+Requires-Dist: pydantic<3.0.0,>=2.5.2
+Requires-Dist: typing-extensions>=4.8.0
+Requires-Dist: networkx>=3.1
 
 |banner|
 

{bluecellulab-2.5.0 → bluecellulab-2.5.4}/bluecellulab.egg-info/PKG-INFO

@@ -1,11 +1,12 @@
 Metadata-Version: 2.1
 Name: bluecellulab
-Version: 2.5.0
+Version: 2.5.4
 Summary: The Pythonic Blue Brain simulator access
-Home-page: https://github.com/BlueBrain/BlueCelluLab
 Author: Blue Brain Project, EPFL
 License: Apache2.0
-Keywords: computational neuroscience,simulation,analysis,parameters,Blue Brain Project
+Project-URL: Homepage, https://github.com/BlueBrain/BlueCelluLab
+Project-URL: Documentation, https://bluecellulab.readthedocs.io/
+Keywords: computational neuroscience,simulation,analysis,SONATA,neural networks,neuron,Blue Brain Project
 Classifier: Development Status :: 5 - Production/Stable
 Classifier: Environment :: Console
 Classifier: License :: OSI Approved :: Apache Software License
@@ -17,6 +18,14 @@ Requires-Python: >=3.8
 Description-Content-Type: text/x-rst
 License-File: LICENSE
 License-File: AUTHORS.txt
+Requires-Dist: NEURON<9.0.0,>=8.0.2
+Requires-Dist: numpy<2.0.0,>=1.8.0
+Requires-Dist: matplotlib<4.0.0,>=3.0.0
+Requires-Dist: pandas<3.0.0,>=1.0.0
+Requires-Dist: bluepysnap<4.0.0,>=3.0.0
+Requires-Dist: pydantic<3.0.0,>=2.5.2
+Requires-Dist: typing-extensions>=4.8.0
+Requires-Dist: networkx>=3.1
 
 |banner|
 

{bluecellulab-2.5.0 → bluecellulab-2.5.4}/bluecellulab.egg-info/SOURCES.txt

@@ -11,7 +11,6 @@ MANIFEST.in
 Makefile
 README.rst
 pyproject.toml
-setup.py
 tox.ini
 .github/dependabot.yml
 .github/workflows/release.yml

bluecellulab-2.5.4/pyproject.toml

@@ -0,0 +1,78 @@
+[build-system]
+requires = ["setuptools>=42", "wheel", "setuptools_scm[toml]>=6.0.1"]
+build-backend = "setuptools.build_meta"
+
+[project]
+name = "bluecellulab"
+description = "The Pythonic Blue Brain simulator access"
+readme = "README.rst"
+authors = [{ name = "Blue Brain Project, EPFL" }]
+dynamic = ["version"]
+license = { text = "Apache2.0" }
+classifiers = [
+    "Development Status :: 5 - Production/Stable",
+    "Environment :: Console",
+    "License :: OSI Approved :: Apache Software License",
+    "Operating System :: POSIX",
+    "Topic :: Scientific/Engineering",
+    "Programming Language :: Python :: 3",
+    "Topic :: Utilities",
+]
+keywords = [
+    "computational neuroscience",
+    "simulation",
+    "analysis",
+    "SONATA",
+    "neural networks",
+    "neuron",
+    "Blue Brain Project",
+]
+dependencies = [
+    "NEURON>=8.0.2,<9.0.0",
+    "numpy>=1.8.0,<2.0.0",
+    "matplotlib>=3.0.0,<4.0.0",
+    "pandas>=1.0.0,<3.0.0",
+    "bluepysnap>=3.0.0,<4.0.0",
+    "pydantic>=2.5.2,<3.0.0",
+    "typing-extensions>=4.8.0",
+    "networkx>=3.1",
+]
+requires-python = ">=3.8"
+
+[project.urls]
+Homepage = "https://github.com/BlueBrain/BlueCelluLab"
+Documentation = "https://bluecellulab.readthedocs.io/"
+
+[tool.setuptools_scm]
+version_scheme = "python-simplified-semver"
+local_scheme = "no-local-version"
+
+[tool.setuptools.packages.find]
+include = ["bluecellulab", "bluecellulab.*"]
+
+[tool.pytest.ini_options]
+markers = [
+    "v5: tests on the neocortex circuit version 5.",
+    "v6: tests on the neocortex circuit version 6.",
+    "thal: tests on the thalamus circuit.",
+    "unit: unit tests.",
+]
+
+[tool.mypy]
+exclude = "doc"
+plugins = ["pydantic.mypy"]
+
+[tool.coverage.run]
+concurrency = ["multiprocessing"]
+parallel = true
+omit = [
+    "bluecellulab/circuit/circuit_access/bluepy_circuit_access.py",
+    "bluecellulab/circuit/config/bluepy_simulation_config.py",
+]
+
+[tool.coverage.report]
+exclude_lines = [
+    "pragma: no cover",
+    "raise NotImplementedError",
+    "@(abc\\.)?abstractmethod",
+]

{bluecellulab-2.5.0 → bluecellulab-2.5.4}/tests/test_cell/test_core.py

@@ -189,7 +189,7 @@ class TestCellBaseClass1:
             assert distance_euclid == distance_hand
 
 
-@pytest.mark.debugtest
+@pytest.mark.v5
 class TestCellBaseClassVClamp:
 
     """First Cell test class"""

bluecellulab-2.5.0/pyproject.toml

@@ -1,27 +0,0 @@
-[tool.pytest.ini_options]
-markers = [
-    "v5: tests on the neocortex circuit version 5.",
-    "v6: tests on the neocortex circuit version 6.",
-    "thal: tests on the thalamus circuit.",
-    "unit: unit tests.",
-    "debugtest: test for debugging purposes."
-]
-
-[tool.mypy]
-exclude = "doc"
-plugins = ["pydantic.mypy"]
-
-[tool.coverage.run]
-concurrency = ["multiprocessing"]
-parallel = true
-omit = [
-    "bluecellulab/circuit/circuit_access/bluepy_circuit_access.py",
-    "bluecellulab/circuit/config/bluepy_simulation_config.py"
-]
-
-[tool.coverage.report]
-exclude_lines = [
-    "pragma: no cover",
-    "raise NotImplementedError",
-    "@(abc\\.)?abstractmethod",
-]

bluecellulab-2.5.0/setup.py

@@ -1,63 +0,0 @@
-# Copyright 2012-2024 Blue Brain Project / EPFL
-
-# Licensed under the Apache License, Version 2.0 (the "License");
-# you may not use this file except in compliance with the License.
-# You may obtain a copy of the License at
-
-#     http://www.apache.org/licenses/LICENSE-2.0
-
-# Unless required by applicable law or agreed to in writing, software
-# distributed under the License is distributed on an "AS IS" BASIS,
-# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
-# See the License for the specific language governing permissions and
-# limitations under the License.
-
-import setuptools
-
-
-# Read the README.rst file
-with open("README.rst", "r", encoding="utf-8") as fh:
-    long_description = fh.read()
-
-setuptools.setup(
-    name="bluecellulab",
-    use_scm_version={
-        'version_scheme': 'python-simplified-semver',
-        'local_scheme': 'no-local-version'
-    },
-    python_requires='>=3.8',
-    setup_requires=['setuptools_scm'],
-    packages=setuptools.find_packages(include=['bluecellulab', 'bluecellulab.*']),
-    author="Blue Brain Project, EPFL",
-    description="The Pythonic Blue Brain simulator access",
-    long_description=long_description,
-    long_description_content_type="text/x-rst",
-    license="Apache2.0",
-    install_requires=[
-        "NEURON>=8.0.2,<9.0.0",
-        "numpy>=1.8.0,<2.0.0",
-        "matplotlib>=3.0.0,<4.0.0",
-        "pandas>=1.0.0,<3.0.0",
-        "bluepysnap>=3.0.0,<4.0.0",
-        "pydantic>=2.5.2,<3.0.0",
-        "typing-extensions>=4.8.0",
-        "networkx>=3.1"
-    ],
-    keywords=[
-        'computational neuroscience',
-        'simulation',
-        'analysis',
-        'parameters',
-        'Blue Brain Project'],
-    url="https://github.com/BlueBrain/BlueCelluLab",
-    classifiers=[
-        'Development Status :: 5 - Production/Stable',
-        'Environment :: Console',
-        'License :: OSI Approved :: Apache Software License',
-        'Operating System :: POSIX',
-        'Topic :: Scientific/Engineering',
-        'Programming Language :: Python :: 3',
-        'Topic :: Utilities',
-    ],
-    include_package_data=True,
-)