Source code for openquake.hmtk.parsers.strain.strain_csv_parser

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Module: openquake.hmtk.parsers.strain.strain_csv_parser contains the :classes:
ReadStrainCsv and WriteStrainCsv to read and write strain data from and
to csv format.

import csv
import numpy as np
from collections import OrderedDict
from openquake.hmtk.strain.geodetic_strain import GeodeticStrain

STRAIN_VARIABLES = ['exx', 'eyy', 'exy', 'var_exx', 'var_eyy', 'var_exy',
                    'cc_xx_xx', 'cc_xx_yy', 'cc_xx_xy']

[docs]class ReadStrainCsv(object): ''' :class:`openquake.hmtk.parsers.strain_csv_parser.ReadStrainCsv` reads a strain model (defined by :class: `openquake.hmtk.strain.geodetic_strain.GeodeticStrain`) from a headed csv file :param str filename: Name of strain file in csv format :param strain: Container for the strain data as instance of :class: `openquake.hmtk.strain.geodetic_strain.GeodeticStrain` ''' def __init__(self, strain_file): ''' ''' self.filename = strain_file self.strain = GeodeticStrain()
[docs] def read_data(self, scaling_factor=1E-9, strain_headers=None): ''' Reads the data from the csv file :param float scaling_factor: Scaling factor used for all strain values (default 1E-9 for nanostrain) :param list strain_headers: List of the variables in the file that correspond to strain parameters :returns: strain - Strain model as an instance of the :class: openquake.hmtk.strain.geodetic_strain.GeodeticStrain ''' if strain_headers: self.strain.data_variables = strain_headers else: self.strain.data_variables = STRAIN_VARIABLES datafile = open(self.filename, 'rU') reader = csv.DictReader(datafile) = OrderedDict([(name, []) for name in reader.fieldnames]) for row in reader: for name in row.keys(): if 'region' in name.lower():[name].append(row[name]) elif name in self.strain.data_variables:[name].append( scaling_factor * float(row[name])) else:[name].append(float(row[name])) for key in if 'region' in key:[key] = np.array([key], dtype='S13') else:[key] = np.array([key]) self._check_invalid_longitudes() if 'region' not in print('No tectonic regionalisation found in input file!') self.strain.data_variables = # Update data with secondary data (i.e. 2nd invariant, e1h, e2h etc. self.strain.get_secondary_strain_data() return self.strain
def _check_invalid_longitudes(self): ''' Checks to ensure that all longitudes are in the range -180. to 180 ''' idlon =['longitude'] > 180. if np.any(idlon):['longitude'][idlon] = \['longitude'][idlon] - 360.
[docs]class WriteStrainCsv(object): ''' :class:`openquake.hmtk.parsers.strain_csv_parser.WriteStrainCsv` writes a strain model (defined by :class: `openquake.hmtk.strain.geodetic_strain.GeodeticStrain`) to a headed csv file :param str filename: Name of output file for writing ''' def __init__(self, filename): ''' ''' self.filename = filename
[docs] def write_file(self, strain, scaling_factor=1E-9): ''' Main writer function for the csv file :param strain: Instance of :class: openquake.hmtk.strain.geodetic_strain.GeodeticStrain :param float scaling_factor: Scaling factor used for all strain values (default 1E-9 for nanostrain) ''' if not isinstance(strain, GeodeticStrain): raise ValueError('Strain data must be instance of GeodeticStrain') for key in if key in strain.data_variables: # Return strain value back to original scaling if key in ['longitude', 'latitude']: continue[key] =[key] / scaling_factor # Slice seismicity rates into separate dictionary vectors strain, output_variables = self.slice_rates_to_data(strain) outfile = open(self.filename, 'wt') print('Writing strain data to file %s' % self.filename) writer = csv.DictWriter(outfile, fieldnames=output_variables) writer.writeheader() for iloc in range(0, strain.get_number_observations()): row_dict = {} for key in output_variables: if len([key]) > 0: # Ignores empty dictionary attributes row_dict[key] =[key][iloc] writer.writerow(row_dict) outfile.close() print('done!')
[docs] def slice_rates_to_data(self, strain): ''' For the strain data, checks to see if seismicity rates have been calculated. If so, each column in the array is sliced and stored as a single vector in the dictionary with the corresponding magnitude as a key. :param strain: Instance of :class: openquake.hmtk.strain.geodetic_strain.GeodeticStrain :returns: strain - Instance of strain class with updated data dictionary output_variables - Updated list of headers ''' output_variables = list( cond = (isinstance(strain.target_magnitudes, np.ndarray) or isinstance(strain.target_magnitudes, list)) if cond: magnitude_list = ['%.3f' % mag for mag in strain.target_magnitudes] else: return strain, output_variables # Ensure that the number of rows in the rate array corresponds to the # number of observations assert np.shape(strain.seismicity_rate)[0] == \ strain.get_number_observations() for iloc, magnitude in enumerate(magnitude_list):[magnitude] = strain.seismicity_rate[:, iloc] output_variables.extend(magnitude_list) return strain, output_variables