167 lines
4.6 KiB
Python
167 lines
4.6 KiB
Python
#!/usr/bin/env python
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# -*- coding: utf-8 -*-
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'''
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##################################################
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## Plot TRC files ##
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##################################################
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Display each point of a TRC file in a different matplotlib tab.
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Usage:
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from Pose2Sim.Utilities import trc_plot; trc_plot.trc_plot_func(r'<input_trc_file>')
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OR python -m trc_plot -i input_trc_file
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'''
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## INIT
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import pandas as pd
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import sys
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import matplotlib.pyplot as plt
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import matplotlib as mpl
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mpl.use('qt5agg')
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mpl.rc('figure', max_open_warning=0)
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from matplotlib.backends.backend_qt5agg import FigureCanvasQTAgg as FigureCanvas
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from matplotlib.backends.backend_qt5agg import NavigationToolbar2QT as NavigationToolbar
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from PyQt5.QtWidgets import QMainWindow, QApplication, QWidget, QTabWidget, QVBoxLayout
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from scipy import signal
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from scipy.ndimage import gaussian_filter1d
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from statsmodels.nonparametric.smoothers_lowess import lowess
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import argparse
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## AUTHORSHIP INFORMATION
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__author__ = "David Pagnon"
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__copyright__ = "Copyright 2021, Pose2Sim"
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__credits__ = ["David Pagnon"]
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__license__ = "BSD 3-Clause License"
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__version__ = '0.4'
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__maintainer__ = "David Pagnon"
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__email__ = "contact@david-pagnon.com"
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__status__ = "Development"
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## CLASSES
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class plotWindow():
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'''
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Display several figures in tabs
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Taken from https://github.com/superjax/plotWindow/blob/master/plotWindow.py
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USAGE:
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pw = plotWindow()
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f = plt.figure()
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plt.plot(x1, y1)
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pw.addPlot("1", f)
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f = plt.figure()
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plt.plot(x2, y2)
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pw.addPlot("2", f)
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'''
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def __init__(self, parent=None):
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self.app = QApplication(sys.argv)
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self.MainWindow = QMainWindow()
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self.MainWindow.__init__()
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self.MainWindow.setWindowTitle("Multitabs figure")
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self.canvases = []
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self.figure_handles = []
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self.toolbar_handles = []
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self.tab_handles = []
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self.current_window = -1
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self.tabs = QTabWidget()
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self.MainWindow.setCentralWidget(self.tabs)
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self.MainWindow.resize(1280, 720)
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self.MainWindow.show()
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def addPlot(self, title, figure):
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new_tab = QWidget()
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layout = QVBoxLayout()
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new_tab.setLayout(layout)
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figure.subplots_adjust(left=0.1, right=0.99, bottom=0.1, top=0.91, wspace=0.2, hspace=0.2)
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new_canvas = FigureCanvas(figure)
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new_toolbar = NavigationToolbar(new_canvas, new_tab)
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layout.addWidget(new_canvas)
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layout.addWidget(new_toolbar)
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self.tabs.addTab(new_tab, title)
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self.toolbar_handles.append(new_toolbar)
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self.canvases.append(new_canvas)
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self.figure_handles.append(figure)
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self.tab_handles.append(new_tab)
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def show(self):
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self.app.exec_()
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## FUNCTIONS
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def display_figures_fun(Q, time_col, keypoints_names):
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'''
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Displays filtered and unfiltered data for comparison
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INPUTS:
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- Q: pandas dataframe of 3D coordinates
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- time_col: pandas column
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- keypoints_names: list of strings
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OUTPUT:
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- matplotlib window with tabbed figures for each keypoint
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'''
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pw = plotWindow()
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for id, keypoint in enumerate(keypoints_names):
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f = plt.figure()
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axX = plt.subplot(311)
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plt.plot(time_col, Q.iloc[:,id*3])
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plt.setp(axX.get_xticklabels(), visible=False)
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axX.set_ylabel(keypoint+' X')
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axY = plt.subplot(312)
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plt.plot(time_col, Q.iloc[:,id*3+1])
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plt.setp(axY.get_xticklabels(), visible=False)
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axY.set_ylabel(keypoint+' Y')
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axZ = plt.subplot(313)
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plt.plot(time_col, Q.iloc[:,id*3+2])
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axZ.set_ylabel(keypoint+' Z')
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axZ.set_xlabel('Time')
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pw.addPlot(keypoint, f)
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pw.show()
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def trc_plot_func(*args):
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'''
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Plot trc files.
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Usage:
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import trc_plot; trc_plot.trc_plot_func(r'<input_trc_file>')
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OR trc_plot -i input_trc_file
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'''
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try:
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trc_path = args[0].get('input_file') # invoked with argparse
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except:
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trc_path = args[0] # invoked as a function
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# Read trc coordinates values
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trc_df = pd.read_csv(trc_path, sep="\t", skiprows=4)
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time_col =trc_df.iloc[:,1]
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Q_coord = trc_df.drop(trc_df.columns[[0, 1]], axis=1)
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# Display figures
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keypoints_names = pd.read_csv(trc_path, sep="\t", skiprows=3, nrows=0).columns[2::3].tolist()
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display_figures_fun(Q_coord, time_col, keypoints_names)
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if __name__ == '__main__':
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parser = argparse.ArgumentParser()
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parser.add_argument('-i', '--input_file', required = True, help='trc input file')
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args = vars(parser.parse_args())
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trc_plot_func(args)
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