py-neuromodulation 0.0.4__py3-none-any.whl → 0.0.5__py3-none-any.whl

{py_neuromodulation-0.0.4.dist-info → py_neuromodulation-0.0.5.dist-info}/METADATA

@@ -1,6 +1,6 @@
 Metadata-Version: 2.3
 Name: py_neuromodulation
-Version: 0.0.4
+Version: 0.0.5
 Summary: Real-time analysis of intracranial neurophysiology recordings.
 Project-URL: bugtracker, https://github.com/neuromodulation/py_neuromodulation/issues
 Project-URL: repository, https://github.com/neuromodulation/py_neuromodulation
@@ -34,39 +34,55 @@ Classifier: License :: OSI Approved :: MIT License
 Classifier: Programming Language :: Python
 Classifier: Topic :: Software Development :: Libraries :: Python Modules
 Requires-Python: >=3.10
-Requires-Dist: black>=24.2.0
 Requires-Dist: filterpy>=1.4.5
 Requires-Dist: fooof
 Requires-Dist: hatch>=1.9.4
 Requires-Dist: imbalanced-learn
-Requires-Dist: ipython
 Requires-Dist: joblib>=1.3.2
-Requires-Dist: matplotlib>=3.3.4
+Requires-Dist: matplotlib>=3.9.0
 Requires-Dist: mne
 Requires-Dist: mne-bids>=0.8
 Requires-Dist: mne-connectivity
+Requires-Dist: mne-lsl>=1.2.0
 Requires-Dist: mrmr-selection
+Requires-Dist: nibabel>=5.2.1
 Requires-Dist: nolds
-Requires-Dist: notebook
 Requires-Dist: numpy>=1.21.2
-Requires-Dist: pandas>=1.2.2
-Requires-Dist: pip
+Requires-Dist: pandas>=2.0.0
+Requires-Dist: pip>=24.2
 Requires-Dist: pyarrow>=14.0.2
-Requires-Dist: pybids
 Requires-Dist: pybispectra>=1.0.0
+Requires-Dist: pydantic>=2.7.3
 Requires-Dist: pynput
 Requires-Dist: pyparrm
-Requires-Dist: pytest>=8.0.2
+Requires-Dist: pyqt5
 Requires-Dist: scikit-image
 Requires-Dist: scikit-learn>=0.24.2
 Requires-Dist: scikit-optimize
 Requires-Dist: scipy>=1.7.1
 Requires-Dist: seaborn>=0.11
-Requires-Dist: wget
+Requires-Dist: statsmodels
 Provides-Extra: dev
-Requires-Dist: black; extra == 'dev'
-Requires-Dist: pytest; extra == 'dev'
+Requires-Dist: notebook; extra == 'dev'
 Requires-Dist: pytest-cov; extra == 'dev'
+Requires-Dist: pytest-sugar; extra == 'dev'
+Requires-Dist: pytest>=8.0.2; extra == 'dev'
+Requires-Dist: ruff; extra == 'dev'
+Provides-Extra: docs
+Requires-Dist: notebook; extra == 'docs'
+Requires-Dist: numpydoc; extra == 'docs'
+Requires-Dist: pydata-sphinx-theme; extra == 'docs'
+Requires-Dist: pytest-cov; extra == 'docs'
+Requires-Dist: pytest-sugar; extra == 'docs'
+Requires-Dist: pytest>=8.0.2; extra == 'docs'
+Requires-Dist: recommonmark; extra == 'docs'
+Requires-Dist: ruff; extra == 'docs'
+Requires-Dist: sphinx; extra == 'docs'
+Requires-Dist: sphinx-gallery; extra == 'docs'
+Requires-Dist: sphinx-togglebutton; extra == 'docs'
+Provides-Extra: test
+Requires-Dist: pytest-xdist; extra == 'test'
+Requires-Dist: pytest>=8.0.2; extra == 'test'
 Description-Content-Type: text/x-rst
 
 py_neuromodulation
@@ -111,23 +127,10 @@ py_neuromodulation requires at least python 3.10. For installation you can use p
 
     pip install py-neuromodulation
 
-
-We recommend however installing the package using `rye <https://rye-up.com/guide/installation/>`_:
-
-.. code-block::
-
-    git clone https://github.com/neuromodulation/py_neuromodulation.git
-    rye pin 3.11
-    rye sync
-
-And then activating the virtual environment e.g. in Windows using:
+Alternatively you can also install the package in a conda environment:
 
 .. code-block::
 
-    .\.venv\Scripts\activate
-
-Alternatively you can also install the package in a conda environment:
-
     conda create -n pynm-test python=3.11
     conda activate pynm-test
 

py_neuromodulation-0.0.5.dist-info/RECORD

@@ -0,0 +1,83 @@
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+py_neuromodulation/liblsl/windows/amd64/liblsl.1.16.2.dll,sha256=M4tzeUOkvXv5_3GZheWJJ74q1AAIIGmcEZLugJIHxGo,804864
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+py_neuromodulation/plots/STN_surf.mat,sha256=Hh2nfQRmP0TYIt8SWV-ajKnC8yk7EmBoAj1c6RMoi9g,124526
+py_neuromodulation/plots/Vertices.mat,sha256=k72WB8-0Datt-bRScxcfpp38LBPHV34zzodS49kQAgs,3709780
+py_neuromodulation/plots/faces.mat,sha256=gWSr-9qNxsAPoG8q-muNnaFZHVHGKqnKN0j3Q1JfMk4,2859245
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+py_neuromodulation/utils/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
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+py_neuromodulation-0.0.5.dist-info/WHEEL,sha256=1yFddiXMmvYK7QYTqtRNtX66WJ0Mz8PYEiEUoOUUxRY,87
+py_neuromodulation-0.0.5.dist-info/licenses/LICENSE,sha256=EMBwuBRPBo-WkHSjqxZ55E6j95gKNBZ8x30pt-VGfrM,1118
+py_neuromodulation-0.0.5.dist-info/RECORD,,

{py_neuromodulation-0.0.4.dist-info → py_neuromodulation-0.0.5.dist-info}/WHEEL

@@ -1,4 +1,4 @@
 Wheel-Version: 1.0
-Generator: hatchling 1.24.1
+Generator: hatchling 1.25.0
 Root-Is-Purelib: true
 Tag: py3-none-any

{py_neuromodulation-0.0.4.dist-info → py_neuromodulation-0.0.5.dist-info}/licenses/LICENSE

@@ -1,21 +1,21 @@
-MIT License
-
-Copyright (c) 2021 Interventional Cognitive Neuromodulation - Neumann Lab Berlin
-
-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.
+MIT License
+
+Copyright (c) 2021 Interventional Cognitive Neuromodulation - Neumann Lab Berlin
+
+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.

py_neuromodulation/nm_EpochStream.py

@@ -1,92 +0,0 @@
-import os
-import pickle
-
-import numpy as np
-import pandas as pd
-
-import py_neuromodulation as nm
-from py_neuromodulation import nm_generator
-
-
-class EpochStream(nm.nm_stream.PNStream):
-    def __init__(self) -> None:
-        super().__init__()
-
-    def read_epoch_data(self, path_epoch) -> None:
-        """Read npy array of epochs. Shape is assumed to be (samples, channels, time)
-
-        Parameters
-        ----------
-        path_epoch : str
-        """
-        self.data = np.load(path_epoch)
-
-    def get_data(
-        self,
-    ) -> np.array:
-        """This data generator returns one epoch at a time.
-        Data will thus be analyzed in steps of the epoch size
-
-        Returns
-        -------
-        np.array
-            _description_
-
-        Yields
-        ------
-        Iterator[np.array]
-            _description_
-        """
-        for n_batch in range(self.data.shape[0]):
-            yield self.data[n_batch, :, :]
-
-    def run(
-        self,
-    ):
-        self._set_run()
-        # shape is n, channels=7, 800 Hz
-
-        self.feature_arr = pd.DataFrame()
-        self.feature_arr_list = []
-        epoch_gen = self.get_data()
-        idx_epoch = 0
-
-        while True:
-            data = next(
-                epoch_gen, None
-            )  # None will be returned if generator ran through
-            if data is None:
-                break
-            gen = nm_generator.raw_data_generator(
-                data, self.settings, self.sfreq
-            )
-
-            def get_data_within_epoch() -> np.array:
-                return next(gen, None)
-
-            idx_within_epoch = 0
-            while True:
-                data_within_epoch = get_data_within_epoch()
-                if data_within_epoch is None:
-                    break
-
-                feature_series = self.run_analysis.process_data(
-                    data_within_epoch
-                )
-                if idx_within_epoch == 0:
-                    self.feature_arr = pd.DataFrame([feature_series])
-                    idx_within_epoch += 1
-                else:
-                    self.feature_arr = self.feature_arr.append(
-                        feature_series, ignore_index=True
-                    )
-            self.feature_arr_list.append(self.feature_arr)
-
-    def _add_timestamp(
-        self, feature_series: pd.Series, idx: int = None
-    ) -> pd.Series:
-        # in case of epochs no timestamp is necessary
-        return feature_series
-
-    def _add_coordinates(self) -> None:
-        pass