run.py

import sys, os
import argparse
import subprocess
from pathlib import Path
import platform

if __name__ == "__main__":
    if platform.system() == "Linux":
        parser = argparse.ArgumentParser(description='this is Single Sensillum Sort v.XX authors: Georg Raiser, XX')
        parser.add_argument("mode", choices=['convert','detect','sort','inspect', 'merge', 'postprocess'], help='determines what to do')
        parser.add_argument("path", help="path to the config file")
        parser.add_argument("-e","--extra-args", action="store", dest="extra_args", help="optional extra arguments, comma separated")
        parser.add_argument("-v","--verbose", action="store_true", help="print out system call")

        # argument parse
        args = vars(parser.parse_args())
        extra_args = args['extra_args'].split(',') if args['extra_args'] is not None else None

        # paths    
        config_path = Path(args['path']).resolve()
        install_dir = Path(sys.argv[0]).parent

        mode = args['mode']

    else:
        mode = sys.argv[1]
        config_path = sys.argv[2]
        install_dir = Path(sys.argv[0]).parent

    if mode == 'convert':
        if extra_args is not None:
            extra_args = ' '.join(extra_args)
            cmd = "python %s/sssio.py %s %s" % (install_dir, config_path, extra_args)
        else:
            cmd = "python %s/sssio.py %s" % (install_dir, config_path)

    if mode == 'detect':
        cmd = "python %s/sssort.py %s %s" % (install_dir, config_path, mode)

    if mode == 'sort':
        cmd = "python %s/sssort.py %s %s" % (install_dir, config_path, mode)

    if mode == 'inspect':
        cmd = "python %s/inspect_result.py %s" % (install_dir, config_path)

    if mode == 'merge':
        cmd = "python %s/manual_merger.py %s" % (install_dir, config_path)

    if mode == 'postprocess':
        cmd = "python %s/post_processing.py %s" % (install_dir, config_path)
    
    if args['verbose']:
        print("executing: %s" % cmd)
    
    subprocess.call(cmd, shell=True)