87 lines
2.9 KiB
Python
87 lines
2.9 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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## Undersample a trc file ##
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##################################################
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Undersample a trc file
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Usage:
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python -m trc_desample -i input_trc_file -f <output_frequency>
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python -m trc_desample -i input_trc_file -f <output_frequency> -o output_trc_file
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from Pose2Sim.Utilities import trc_desample; trc_desample.trc_desample_func(r'input_trc_file', output_frequency, r'output_trc_file')
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'''
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## INIT
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import pandas as pd
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import re
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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__ = "0.9.4"
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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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## FUNCTIONS
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def trc_desample_func(*args):
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'''
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Undersample a trc file
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Usage:
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trc_desample -i input_trc_file -f <output_frequency>
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trc_desample -i input_trc_file -f <output_frequency> -o output_trc_file
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import trc_desample; trc_desample.trc_desample_func(r'input_trc_file', output_frequency, r'output_trc_file')
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'''
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try:
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trc_path = args[0]['input_file'] # invoked with argparse
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f_out = int(args[0]['output_frequency'])
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if args[0]['output_file'] == None:
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trc_desampled_path = trc_path.replace('.trc', f'_{f_out}fps.trc')
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else:
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trc_desampled_path = args[0]['output']
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except:
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trc_path = args[0] # invoked as a function
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f_out = int(args[1])
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trc_desampled_path = trc_path.replace('.trc', f'_{f_out}fps.trc')
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# header
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with open(trc_path, 'r') as trc_file:
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header = [next(trc_file) for line in range(5)]
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params_in = re.split('\t|\n', header[2])[:-1]
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params_in = [int(p) if i not in [3,4] else p for i,p in enumerate(params_in)]
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f_in = params_in[0]
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params_out = [int(p*f_out/f_in) if i not in [3,4] else p for i,p in enumerate(params_in)]
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params_out = [str(p) for i,p in enumerate(params_out)]
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header[2] = '\t'.join(params_out) + '\n'
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# data
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Q = pd.read_csv(trc_path, sep="\t", skiprows=4)
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Q = Q.iloc[::int(f_in/f_out),:]
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Q.iloc[:,0] = range(len(Q))
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# write trc
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with open(trc_desampled_path, 'w') as trc_o:
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[trc_o.write(line) for line in header]
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Q.to_csv(trc_o, sep='\t', index=False, header=None, lineterminator='\n')
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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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parser.add_argument('-f', '--output_frequency', required = True, help='required output frequency')
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parser.add_argument('-o', '--output_file', required=False, help='trc desampled output file')
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args = vars(parser.parse_args())
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trc_desample_func(args) |