code refactor

.github/workflows/ross-test.yml

@@ -14,18 +14,18 @@ jobs:
     strategy:
       max-parallel: 5
     steps:
-    - uses: actions/checkout@v3
-    - name: Set up Python 3.9
-      uses: actions/setup-python@v3
-      with:
-        python-version: '3.9'
-    - name: Add conda to system path
-      run: |
-        # $CONDA is an environment variable pointing to the root of the miniconda directory
-        echo $CONDA/bin >> $GITHUB_PATH
-    - name: Install dependencies
-      run: |
-        conda env update --file environment.yml --name base
-    - name: Test with pytest
-      run: |
-        python -m pytest -q -rf --tb=short --cov-report term-missing --cov=./
+      - uses: actions/checkout@v3
+      - name: Set up Python 3.9
+        uses: actions/setup-python@v3
+        with:
+          python-version: '3.9'
+      - name: Add conda to system path
+        run: |
+          # $CONDA is an environment variable pointing to the root of the miniconda directory
+          echo $CONDA/bin >> $GITHUB_PATH
+      - name: Install dependencies
+        run: |
+          conda env update --file environment.yml --name base
+      - name: Test with pytest
+        run: |
+          python -m pytest -q -rf --tb=short --cov-report term-missing --cov=./

README.md

@@ -4,15 +4,17 @@
 
 ![ROSS Test](https://github.com/ramintoosi/ROSS/actions/workflows/ross-test.yml/badge.svg)
 
-ROSS v2 (alpha) is the Python version of offline spike sorting software implemented based on the methods described in the
+ROSS v2 (alpha) is the Python version of offline spike sorting software implemented based on the methods described in
+the
 paper
 entitled [An automatic spike sorting algorithm based on adaptive spike detection and a mixture of skew-t distributions](https://www.nature.com/articles/s41598-021-93088-w). (
 Official Python Implementation)
 
 ### Important Note on ROSS v2
 
 ROSS v2 is implemented based on the client-server architecture. In the alpha version, the GUI and processing units are
-completely separated and their connection is based on Restful APIs. Now, you are able to run the light GUI on a simple machine while the data and algorithms would be executed on a
+completely separated and their connection is based on Restful APIs. Now, you are able to run the light GUI on a simple
+machine while the data and algorithms would be executed on a
 separate server in your lab. Please carefully read the docs and check our tutorial videos.
 
 ## Requirements
@@ -32,6 +34,7 @@ separate server in your lab. Please carefully read the docs and check our tutori
 2. Run the UI by typing  ```python ./ross_ui/main.py``` in the terminal.
 
 **Note:** If you have a separate server, run ```step 1``` in your server and ```step 2``` in your personal computer.
+
 3. The first time you want to use the software, you must define a user as follows:
 
 - In opened window, click on ```Options``` ---> ```Sign In/Up``` , enter the desired username and password, click
@@ -88,6 +91,7 @@ ROSS v2, same as v1, provides useful tools for spike detection, automatic and ma
   ![image](./images/vis2.png)
 
 # Citation
+
 If ROSS helps your research, please cite our paper in your publications.
 
 ```

ross_backend/rutils/io.py

@@ -3,8 +3,8 @@
 from pathlib import Path
 from uuid import uuid4
 
-from scipy.io import loadmat
 import numpy as np
+from scipy.io import loadmat
 
 Raw_data_path = os.path.join(Path(__file__).parent, '../ross_data/Raw_Data')
 Path(Raw_data_path).mkdir(parents=True, exist_ok=True)

ross_ui/controller/mainWindow.py

@@ -7,7 +7,6 @@
 
 import matplotlib.pyplot as plt
 import numpy as np
-import pandas as pd
 import pyqtgraph
 import pyqtgraph.exporters
 import pyqtgraph.opengl as gl
@@ -16,7 +15,6 @@
 from PyQt5 import QtCore, QtWidgets, QtGui
 from PyQt5.QtGui import QPixmap, QTransform, QColor, QIcon
 from colour import Color
-from nptdms import TdmsFile
 from shapely.geometry import Point, Polygon
 from sklearn.neighbors import NearestNeighbors