pylot/autoPyLoT.py

#!/usr/bin/env python
# -*- coding: utf-8 -*-


import os
import argparse
import glob

import matplotlib.pyplot as plt
from obspy.core import read
from pylot.core.util import _getVersionString
from pylot.core.read import Data, AutoPickParameter
from pylot.core.pick.run_autopicking import run_autopicking
from pylot.core.util.structure import DATASTRUCTURE


__version__ = _getVersionString()

#METHOD = {'HOS':HOScf, 'AIC':AICcf}

def autoPyLoT(inputfile):
    '''
    Determine phase onsets automatically utilizing the automatic picking
    algorithm by Kueperkoch et al. 2011.

    :param inputfile: path to the input file containing all parameter
    information for automatic picking (for formatting details, see.
    `~pylot.core.read.input.AutoPickParameter`
    :type inputfile: str
    :return:

    .. rubric:: Example

    '''

    # reading parameter file

    parameter = AutoPickParameter(inputfile)

    data = Data()

    # getting information on data structure

    if parameter.hasParam('datastructure'):
        datastructure = DATASTRUCTURE[parameter.getParam('datastructure')]()
        dsfields = {'root':parameter.getParam('rootpath'),
                    'dpath':parameter.getParam('datapath'),
                    'dbase':parameter.getParam('database')}

        exf = ['root', 'dpath', 'dbase']

        if parameter.hasParam('eventID'):
            dsfields['eventID'] = parameter.getParam('eventID')
            exf.append('eventID')
            datastructure.modifyFields(**dsfields)

        datastructure.setExpandFields(exf)

        # get streams
        # read each event in database
        datapath = datastructure.expandDataPath()
        if not parameter.hasParam('eventID'):
            for event in [events for events in glob.glob(os.path.join(datapath, '*')) if os.path.isdir(events)]:
                print 'Reading %s' %event 
                data.setWFData(glob.glob(os.path.join(datapath, event, '*')))
        #for single event processing
        else:
            data.setWFData(glob.glob(os.path.join(datapath, parameter.getParam('eventID'), '*')))
            print data
       
        wfdat = data.getWFData() # all available streams

        ##########################################################
        # !automated picking starts here!   
        for i in range(len(wfdat) - 2):
            stationID = wfdat[i].stats.station
            #find corresponding streams
            statdat = wfdat.select(station=stationID)
            run_autopicking(statdat, parameter)
            

if __name__ == "__main__":
    # parse arguments
    parser = argparse.ArgumentParser(
        description='''autoPyLoT automatically picks phase onset times using higher order statistics, 
                       autoregressive prediction and AIC''')

    parser.add_argument('-i', '-I', '--inputfile', type=str,
                        action='store',
                        help='''full path to the file containing the input
                        parameters for autoPyLoT''',
                        default=os.path.join(os.path.expanduser('~'), '.pylot',
                                             'autoPyLoT.in')
                        )
    parser.add_argument('-v', '-V', '--version', action='version',
                        version='autoPyLoT ' + __version__,
                        help='show version information and exit')

    cla = parser.parse_args()

    autoPyLoT(str(cla.inputfile))