py-neuromodulation 0.1.3__tar.gz → 0.1.7__tar.gz

{py_neuromodulation-0.1.3 → py_neuromodulation-0.1.7}/.github/workflows/docs_pages.yml

@@ -24,7 +24,7 @@ jobs:
       - name: Set up Python with uv
         uses: drivendataorg/setup-python-uv-action@v1
         with:
-          python-version: '3.11'
+          python-version: '3.12'
           cache: packages
           cache-dependency-path: pyproject.toml
  

{py_neuromodulation-0.1.3 → py_neuromodulation-0.1.7}/.github/workflows/python-publish.yml

@@ -16,7 +16,7 @@ jobs:
       - name: Set up Python
         uses: actions/setup-python@v4
         with:
-          python-version: '3.11'  # Specify your Python version
+          python-version: '3.12'  # Specify your Python version
 
       - name: Install dependencies
         run: |

{py_neuromodulation-0.1.3 → py_neuromodulation-0.1.7}/.github/workflows/tests.yml

@@ -28,13 +28,13 @@ jobs:
         platform:
           - os: ubuntu-latest
             name: Linux
-          - os: macos-latest
-            name: MacOS
+#          - os: macos-latest
+#            name: MacOS
           - os: windows-latest
             name: Windows
         python:
-          - "3.11"
           - "3.12"
+          - "3.13"
     steps:
       - uses: actions/checkout@v4
       - name: Install and cache Linux packages
@@ -43,17 +43,13 @@ jobs:
         with:
           packages: binutils qtbase5-dev qt5-qmake libpugixml1v5
       - name: Install uv
-        uses: astral-sh/setup-uv@v3
+        uses: astral-sh/setup-uv@v7
         with:
-          version: "0.4.12"
-          enable-cache: true
+          python-version: "${{ matrix.python }}"
+          enable-cache: auto
+          activate-environment: "true"
           cache-dependency-glob: "**/pyproject.toml"
-      - name: Install Python and dependencies
-        run: |
-          uv python install ${{ matrix.python }}
-          uv venv
-          uv pip install .[test]
+      - name: Install dependencies
+        run: uv pip install .[test]
       - name: Run tests
-        run: |
-          ${{ (runner.os == 'Windows' && '.venv\Scripts\activate') || 'source .venv/bin/activate' }}
-          pytest -n auto tests/
+        run: pytest -n auto tests/

{py_neuromodulation-0.1.3 → py_neuromodulation-0.1.7}/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.4
 Name: py_neuromodulation
-Version: 0.1.3
+Version: 0.1.7
 Summary: Real-time analysis of intracranial neurophysiology recordings.
 Project-URL: Homepage, https://neuromodulation.github.io/py_neuromodulation/
 Project-URL: Documentation, https://neuromodulation.github.io/py_neuromodulation/
@@ -35,7 +35,7 @@ Classifier: Development Status :: 2 - Pre-Alpha
 Classifier: License :: OSI Approved :: MIT License
 Classifier: Programming Language :: Python
 Classifier: Topic :: Software Development :: Libraries :: Python Modules
-Requires-Python: >=3.11
+Requires-Python: >=3.12
 Requires-Dist: cbor2>=5.6.4
 Requires-Dist: fastapi
 Requires-Dist: fooof
@@ -92,9 +92,18 @@ Requires-Dist: pytest-xdist; extra == 'test'
 Requires-Dist: pytest>=8.0.2; extra == 'test'
 Description-Content-Type: text/x-rst
 
+
+
 py_neuromodulation
 ==================
 
+Journal of Open Source Science publication:
+
+.. image:: https://joss.theoj.org/papers/10.21105/joss.08258/status.svg
+   :target: https://doi.org/10.21105/joss.08258
+
+
+
 Documentation: https://neuromodulation.github.io/py_neuromodulation/
 
 Analyzing neural data can be a troublesome, trial and error prone,
@@ -130,7 +139,7 @@ Find the documentation here neuromodulation.github.io/py_neuromodulation/ for ex
 Installation
 ============
 
-py_neuromodulation requires at least python 3.10. For installation you can use pip:
+py_neuromodulation requires at least python 3.12. For installation you can use pip:
 
 .. code-block::
 
@@ -140,7 +149,7 @@ Alternatively you can also clone the pacakge and install it using `uv <https://d
 
 .. code-block::
 
-    uv python install 3.10
+    uv python install 3.12
     uv venv
     . .venv/bin/activate
     uv sync
@@ -170,7 +179,7 @@ Basic Usage
     stream = nm.Stream(sfreq=sfreq, data=data, sampling_rate_features_hz=sampling_rate_features_hz)
     features = stream.run()
 
-Check the `Usage <https://py-neuromodulation.readthedocs.io/en/latest/usage.html>`_ and `First examples <https://py-neuromodulation.readthedocs.io/en/latest/auto_examples/plot_0_first_demo.html>`_ for further introduction.
+Check the `Usage <https://neuromodulation.github.io/py_neuromodulation/usage.html>`_ and `First examples <https://neuromodulation.github.io/py_neuromodulation/auto_examples/index.html>`_ for further introduction.
 
 Contact information
 -------------------

{py_neuromodulation-0.1.3 → py_neuromodulation-0.1.7}/README.rst

@@ -1,6 +1,15 @@
+
+
 py_neuromodulation
 ==================
 
+Journal of Open Source Science publication:
+
+.. image:: https://joss.theoj.org/papers/10.21105/joss.08258/status.svg
+   :target: https://doi.org/10.21105/joss.08258
+
+
+
 Documentation: https://neuromodulation.github.io/py_neuromodulation/
 
 Analyzing neural data can be a troublesome, trial and error prone,
@@ -36,7 +45,7 @@ Find the documentation here neuromodulation.github.io/py_neuromodulation/ for ex
 Installation
 ============
 
-py_neuromodulation requires at least python 3.10. For installation you can use pip:
+py_neuromodulation requires at least python 3.12. For installation you can use pip:
 
 .. code-block::
 
@@ -46,7 +55,7 @@ Alternatively you can also clone the pacakge and install it using `uv <https://d
 
 .. code-block::
 
-    uv python install 3.10
+    uv python install 3.12
     uv venv
     . .venv/bin/activate
     uv sync
@@ -76,7 +85,7 @@ Basic Usage
     stream = nm.Stream(sfreq=sfreq, data=data, sampling_rate_features_hz=sampling_rate_features_hz)
     features = stream.run()
 
-Check the `Usage <https://py-neuromodulation.readthedocs.io/en/latest/usage.html>`_ and `First examples <https://py-neuromodulation.readthedocs.io/en/latest/auto_examples/plot_0_first_demo.html>`_ for further introduction.
+Check the `Usage <https://neuromodulation.github.io/py_neuromodulation/usage.html>`_ and `First examples <https://neuromodulation.github.io/py_neuromodulation/auto_examples/index.html>`_ for further introduction.
 
 Contact information
 -------------------

{py_neuromodulation-0.1.3 → py_neuromodulation-0.1.7}/docs/source/contributing.rst

@@ -13,7 +13,7 @@ To setup the python environment, type
 
 ::
 
-    uv python install 3.11
+    uv python install 3.12
     uv venv
 
 

{py_neuromodulation-0.1.3 → py_neuromodulation-0.1.7}/docs/source/index.rst

@@ -51,6 +51,14 @@ The original intention for writing this toolbox was movement decoding from invas
 The application however could be any neural decoding and analysis problem.
 *py_neuromodulation* offers wrappers around common practice machine learning methods for efficient analysis.
 
+
+Journal of Open Source Software publication
+-------------------------------------------
+
+.. image:: https://joss.theoj.org/papers/10.21105/joss.08258/status.svg
+   :target: https://doi.org/10.21105/joss.08258
+
+
 References
 ----------
 

{py_neuromodulation-0.1.3 → py_neuromodulation-0.1.7}/docs/source/installation.rst

@@ -1,7 +1,7 @@
 Installation
 ============
 
-py_neuromodulation requires at least python 3.11. For installation you can use pip:
+py_neuromodulation requires at least python 3.12. For installation you can use pip:
 
 .. code-block::
 
@@ -12,7 +12,7 @@ We recommend, however, using the package manager `uv <https://docs.astral.sh/uv/
 .. code-block::
 
     git clone https://github.com/neuromodulation/py_neuromodulation.git
-    uv python install 3.11
+    uv python install 3.12
     uv venv
 
 And then activating the virtual environment e.g. in Windows using:
@@ -48,7 +48,7 @@ If needed, install the documentation dependencies:
 
 Alternatively, you can also install the package in a conda environment:
 
-    conda create -n pynm-test python=3.11
+    conda create -n pynm-test python=3.12
     conda activate pynm-test
 
 Then install the packages listed in the `pyproject.toml`:

{py_neuromodulation-0.1.3 → py_neuromodulation-0.1.7}/examples/plot_3_example_sharpwave_analysis.py

@@ -306,7 +306,7 @@ stream = nm.Stream(
     verbose=True,
 )
 
-df_features = stream.run(data=data[:, :30000], save_csv=True)
+df_features = stream.run(data=data[:, :30000], save_csv=False)
 
 # %%
 # We can then plot two exemplary features, prominence and interval, and see that the movement amplitude can be clustered with those two features alone:

{py_neuromodulation-0.1.3 → py_neuromodulation-0.1.7}/examples/plot_8_cebra_example.py

@@ -2,7 +2,9 @@
 Cebra Decoding with no training Example
 ======================================
 
-The following example show how to use the Cebra decoding without training.
+The following example shows how to use the Cebra package for decoding without patient-individual training.
+Note that the plot_8_cebra_example.py file just hosts the example_cebra_decoding.html file due to computational limitations.
+When re-running this file, please refer to the example_cebra_decoding.ipynb in the examples directory.
 
 """