Merge branch 'develop' into improve-util-utils
This commit is contained in:
commit
b3fdbc811e
65
PyLoT.py
65
PyLoT.py
@ -84,7 +84,7 @@ from pylot.core.util.widgets import FilterOptionsDialog, NewEventDlg, \
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PylotCanvas, WaveformWidgetPG, PropertiesDlg, HelpForm, createAction, PickDlg, \
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ComparisonWidget, TuneAutopicker, PylotParaBox, AutoPickDlg, CanvasWidget, AutoPickWidget, \
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CompareEventsWidget, ProgressBarWidget, AddMetadataWidget, SingleTextLineDialog, LogWidget, PickQualitiesFromXml, \
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SourceSpecWindow, ChooseWaveFormWindow
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SourceSpecWindow, ChooseWaveFormWindow, SpectrogramTab
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from pylot.core.util.array_map import Array_map
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from pylot.core.util.structure import DATASTRUCTURE
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from pylot.core.util.thread import Thread, Worker
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@ -496,7 +496,6 @@ class MainWindow(QMainWindow):
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icon=eventlist_xml_icon,
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tip='Create an Eventlist from a XML File')
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self.eventlist_xml_action.setEnabled(False)
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printAction = self.createAction(self, "&Print event ...",
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self.show_event_information, QKeySequence.Print,
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print_icon,
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@ -698,14 +697,17 @@ class MainWindow(QMainWindow):
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wf_tab = QtWidgets.QWidget(self)
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array_tab = QtWidgets.QWidget(self)
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events_tab = QtWidgets.QWidget(self)
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spectro_tab = QtWidgets.QWidget(self)
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# init main widgets layouts
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self.wf_layout = QtWidgets.QVBoxLayout()
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self.array_layout = QtWidgets.QVBoxLayout()
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self.events_layout = QtWidgets.QVBoxLayout()
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self.spectro_layout = QtWidgets.QVBoxLayout()
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wf_tab.setLayout(self.wf_layout)
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array_tab.setLayout(self.array_layout)
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events_tab.setLayout(self.events_layout)
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spectro_tab.setLayout(self.spectro_layout)
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# tighten up layouts inside tabs
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for layout in [self.wf_layout, self.array_layout, self.events_layout]:
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@ -716,12 +718,14 @@ class MainWindow(QMainWindow):
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self.tabs.addTab(wf_tab, 'Waveform Plot')
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self.tabs.addTab(array_tab, 'Array Map')
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self.tabs.addTab(events_tab, 'Eventlist')
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self.tabs.addTab(spectro_tab, 'Spectro')
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self.wf_layout.addWidget(self.no_data_label)
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self.wf_layout.addWidget(self.wf_scroll_area)
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self.wf_scroll_area.setWidgetResizable(True)
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self.init_array_tab()
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self.init_event_table()
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self.init_spectro_tab()
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self.tabs.setCurrentIndex(0)
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self.eventLabel = QLabel()
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@ -734,16 +738,13 @@ class MainWindow(QMainWindow):
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_widget.setLayout(self._main_layout)
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_widget.showFullScreen()
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self.logwidget = LogWidget(parent=None)
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if use_logwidget:
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self.logwidget = LogWidget(parent=None)
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self.logwidget.show()
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self.stdout = self.logwidget.stdout
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self.stderr = self.logwidget.stderr
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# Not sure why but the lines above kept messing with the Ouput even with use_logwidget disabled
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sys.stdout = self.stdout
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sys.stderr = self.stderr
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self.setCentralWidget(_widget)
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# Need to store PickQualities Window somewhere so it doesnt disappear
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@ -1678,20 +1679,20 @@ class MainWindow(QMainWindow):
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def pickQualities(self):
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path = self.get_current_event_path()
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(_, _, plot) = getQualitiesfromxml(path, self._inputs.get('timeerrorsP'), self._inputs.get('timeerrorsS'),plotflag=1)
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(_, plot) = getQualitiesfromxml(path, self._inputs.get('timeerrorsP'), self._inputs.get('timeerrorsS'),plotflag=1)
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self.pickQualitiesWindow = PickQualitiesFromXml(figure=plot, path=self.get_current_event_path(),inputVar=self._inputs)
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self.pickQualitiesWindow.showUI()
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return
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# WIP JG
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def eventlistXml2(self):
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def eventlistXml(self):
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path = self._inputs['rootpath'] + '/' + self._inputs['datapath'] + '/' + self._inputs['database']
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outpath = self.project.location[:self.project.location.rfind('/')]
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geteventlistfromxml(path, outpath)
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return
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# WIP JG
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def eventlistXml(self):
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# WIP JG
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def spectogramView(self):
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global test
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stations = []
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names = []
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@ -1706,12 +1707,25 @@ class MainWindow(QMainWindow):
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for tr in self.get_data().wfdata.select(component=ch).traces:
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traces[tr.stats.station][ch] = tr
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names.sort()
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a = self.get_current_event()
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test = ChooseWaveFormWindow(WaveForms=names, traces=traces, stream=self.get_data())
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#self.get_data().wfdata.spectrogram()
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test.show()
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print (self.get_data().wfdata.traces[0])
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test = SpectrogramTab(traces, self.get_data().wfdata)
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height = self.tabs.widget(0).height()
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width = self.tabs.widget(0).width()
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self.tabs.setCurrentIndex(3)
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figCanvas = test.makeSpecFig(direction=self.dispComponent, height = height, width = width, parent = self.tabs.widget)
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return figCanvas
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#self.spectro_layout.addWidget()
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# self.get_data().wfdata.spectrogram()
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# self.tabs.addTab(figCanvas, 'Spectrogram')
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# self.tabs[3] = figCanvas
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# self.refreshTabs()
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# test.show()
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def compareMulti(self):
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if not self.compareoptions:
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@ -1898,6 +1912,13 @@ class MainWindow(QMainWindow):
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self.newWF(plot=False)
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self.update_obspy_dmt()
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self.refresh_array_map()
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if self.tabs.currentIndex() == 3:
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if self.spectroWidget != None:
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self.spectro_layout.removeWidget(self.spectroWidget)
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newSpectroWidget = self.spectogramView()
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self.spectro_layout.addWidget(newSpectroWidget)
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self.spectroWidget = newSpectroWidget
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def newWF(self, event=None, plot=True):
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'''
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@ -2155,6 +2176,7 @@ class MainWindow(QMainWindow):
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self.locateEventAction.setEnabled(True)
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self.qualities_action.setEnabled(True)
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self.eventlist_xml_action.setEnabled(True)
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if True in self.comparable.values():
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self.compare_action.setEnabled(True)
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self.draw()
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@ -3128,7 +3150,7 @@ class MainWindow(QMainWindow):
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phasefile = os.path.join(obsdir, filename + '.obs')
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lt.modify_inputs(ctrfile, locroot, filename, phasefile, ttt)
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try:
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lt.locate(ctrfile, self.obspy_dmt)
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lt.locate(ctrfile, self._inputs)
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except RuntimeError as e:
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print(e.message)
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# finally:
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@ -3182,7 +3204,7 @@ class MainWindow(QMainWindow):
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'''
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if checked: pass # dummy argument for QAction trigger signal
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self.tabs.setCurrentIndex(1)
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# if there is no metadata (invetories is an empty list), just initialize the default empty tab
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# if there is no metadata (inventories is an empty list), just initialize the default empty tab
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if not self.metadata.inventories:
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self.init_array_tab()
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return
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@ -3204,6 +3226,15 @@ class MainWindow(QMainWindow):
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self.tabs.setCurrentIndex(index)
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self.refresh_array_map()
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def init_spectro_tab(self):
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'''
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Init spectrogram tab with currently selected event.
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'''
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self.spectroWidget = None
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#self.spectro_layout.addWidget( self.spectogramView() )
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pass
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def array_map_thread(self):
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'''
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Start modal thread to init the array_map object.
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@ -260,7 +260,6 @@ class Data(object):
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can be a str or a list of strings of ['manual', 'auto', 'origin', 'magnitude']
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"""
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from pylot.core.util.defaults import OUTPUTFORMATS
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if not type(fcheck) == list:
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fcheck = [fcheck]
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@ -321,35 +320,61 @@ class Data(object):
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if lendiff != 0:
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print("Manual as well as automatic picks available. Prefered the {} manual ones!".format(lendiff))
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no_uncertainties_p = []
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no_uncertainties_s = []
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if upperErrors:
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# check for pick uncertainties exceeding adjusted upper errors
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# Picks with larger uncertainties will not be saved in output file!
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for j in range(len(picks)):
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for i in range(len(picks_copy)):
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if picks_copy[i].phase_hint[0] == 'P':
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if (picks_copy[i].time_errors['upper_uncertainty'] >= upperErrors[0]) or \
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(picks_copy[i].time_errors['uncertainty'] is None):
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# Skipping pick if no upper_uncertainty is found and warning user
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if picks_copy[i].time_errors['upper_uncertainty'] is None:
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#print("{1} P-Pick of station {0} does not have upper_uncertainty and cant be checked".format(
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# picks_copy[i].waveform_id.station_code,
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# picks_copy[i].method_id))
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if not picks_copy[i].waveform_id.station_code in no_uncertainties_p:
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no_uncertainties_p.append(picks_copy[i].waveform_id.station_code)
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continue
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#print ("checking for upper_uncertainty")
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if (picks_copy[i].time_errors['uncertainty'] is None) or \
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(picks_copy[i].time_errors['upper_uncertainty'] >= upperErrors[0]):
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print("Uncertainty exceeds or equal adjusted upper time error!")
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print("Adjusted uncertainty: {}".format(upperErrors[0]))
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print("Pick uncertainty: {}".format(picks_copy[i].time_errors['uncertainty']))
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print("{1} P-Pick of station {0} will not be saved in outputfile".format(
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picks_copy[i].waveform_id.station_code,
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picks_copy[i].method_id))
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print("#")
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del picks_copy[i]
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break
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if picks_copy[i].phase_hint[0] == 'S':
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if (picks_copy[i].time_errors['upper_uncertainty'] >= upperErrors[1]) or \
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(picks_copy[i].time_errors['uncertainty'] is None):
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# Skipping pick if no upper_uncertainty is found and warning user
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if picks_copy[i].time_errors['upper_uncertainty'] is None:
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#print("{1} S-Pick of station {0} does not have upper_uncertainty and cant be checked".format(
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#picks_copy[i].waveform_id.station_code,
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#picks_copy[i].method_id))
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if not picks_copy[i].waveform_id.station_code in no_uncertainties_s:
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no_uncertainties_s.append(picks_copy[i].waveform_id.station_code)
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continue
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if (picks_copy[i].time_errors['uncertainty'] is None) or \
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(picks_copy[i].time_errors['upper_uncertainty'] >= upperErrors[1]):
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print("Uncertainty exceeds or equal adjusted upper time error!")
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print("Adjusted uncertainty: {}".format(upperErrors[1]))
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print("Pick uncertainty: {}".format(picks_copy[i].time_errors['uncertainty']))
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print("{1} S-Pick of station {0} will not be saved in outputfile".format(
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picks_copy[i].waveform_id.station_code,
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picks_copy[i].method_id))
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print("#")
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del picks_copy[i]
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break
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for s in no_uncertainties_p:
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print("P-Pick of station {0} does not have upper_uncertainty and cant be checked".format(s))
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for s in no_uncertainties_s:
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print("S-Pick of station {0} does not have upper_uncertainty and cant be checked".format(s))
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if fnext == '.obs':
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try:
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@ -517,7 +517,7 @@ def writephases(arrivals, fformat, filename, parameter=None, eventinfo=None):
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arrivals = chooseArrivals(arrivals) # MP MP what is chooseArrivals? It is not defined anywhere
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for key in arrivals:
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# P onsets
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if arrivals[key].has_key('P'):
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if 'P' in arrivals[key]:
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try:
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fm = arrivals[key]['P']['fm']
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except KeyError as e:
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@ -551,7 +551,7 @@ def writephases(arrivals, fformat, filename, parameter=None, eventinfo=None):
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ss_ms,
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pweight))
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# S onsets
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if arrivals[key].has_key('S') and arrivals[key]['S']['mpp'] is not None:
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if 'S' in arrivals[key] and arrivals[key]['S']['mpp'] is not None:
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fm = '?'
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onset = arrivals[key]['S']['mpp']
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year = onset.year
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@ -670,7 +670,7 @@ def writephases(arrivals, fformat, filename, parameter=None, eventinfo=None):
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arrivals = chooseArrivals(arrivals) # MP MP what is chooseArrivals? It is not defined anywhere
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for key in arrivals:
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# P onsets
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if arrivals[key].has_key('P') and arrivals[key]['P']['mpp'] is not None:
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if 'P' in arrivals[key] and arrivals[key]['P']['mpp'] is not None:
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if arrivals[key]['P']['weight'] < 4:
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Ponset = arrivals[key]['P']['mpp']
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pyear = Ponset.year
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@ -699,7 +699,7 @@ def writephases(arrivals, fformat, filename, parameter=None, eventinfo=None):
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fid.write('%-5s P1 %4.0f %02d %02d %02d %02d %05.02f %5.3f -999. 0.00 -999. 0.00\n'
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% (key, pyear, pmonth, pday, phh, pmm, Pss, pstd))
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# S onsets
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if arrivals[key].has_key('S') and arrivals[key]['S']['mpp'] is not None:
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if 'S' in arrivals[key] and arrivals[key]['S']['mpp'] is not None:
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if arrivals[key]['S']['weight'] < 4:
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Sonset = arrivals[key]['S']['mpp']
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syear = Sonset.year
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@ -768,7 +768,7 @@ def writephases(arrivals, fformat, filename, parameter=None, eventinfo=None):
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usedarrivals = chooseArrivals(arrivals)
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for key in usedarrivals:
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# P onsets
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if usedarrivals[key].has_key('P'):
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if 'P' in usedarrivals[key]:
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if usedarrivals[key]['P']['weight'] < 4:
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n += 1
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stat = key
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@ -782,7 +782,7 @@ def writephases(arrivals, fformat, filename, parameter=None, eventinfo=None):
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else:
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fid.write('%-4sP%d%6.2f\n' % (stat, Pweight, Prt))
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# S onsets
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if usedarrivals[key].has_key('S'):
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if 'S' in usedarrivals[key]:
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if usedarrivals[key]['S']['weight'] < 4:
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n += 1
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stat = key
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@ -828,13 +828,13 @@ def writephases(arrivals, fformat, filename, parameter=None, eventinfo=None):
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# prefer manual picks
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usedarrivals = chooseArrivals(arrivals)
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for key in usedarrivals:
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if usedarrivals[key].has_key('P'):
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if 'P' in usedarrivals[key]:
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# P onsets
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if usedarrivals[key]['P']['weight'] < 4:
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Ponset = usedarrivals[key]['P']['mpp']
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Prt = Ponset - stime # onset time relative to source time
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fid.write('%s %6.3f 1 P\n' % (key, Prt))
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if usedarrivals[key].has_key('S'):
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if 'S' in usedarrivals[key]:
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# S onsets
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if usedarrivals[key]['S']['weight'] < 4:
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Sonset = usedarrivals[key]['S']['mpp']
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@ -879,7 +879,7 @@ def writephases(arrivals, fformat, filename, parameter=None, eventinfo=None):
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# prefer manual picks
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usedarrivals = chooseArrivals(arrivals)
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for key in usedarrivals:
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if usedarrivals[key].has_key('P'):
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if 'P' in usedarrivals[key]:
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if usedarrivals[key]['P']['weight'] < 4 and usedarrivals[key]['P']['fm'] is not None:
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stat = key
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for i in range(len(picks)):
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@ -961,7 +961,7 @@ def writephases(arrivals, fformat, filename, parameter=None, eventinfo=None):
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arrivals = chooseArrivals(arrivals) # MP MP what is chooseArrivals? It is not defined anywhere
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# write phase lines
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for key in arrivals:
|
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if arrivals[key].has_key('P'):
|
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if 'P' in arrivals[key]:
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if arrivals[key]['P']['weight'] < 4 and arrivals[key]['P']['fm'] is not None:
|
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stat = key
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ccode = arrivals[key]['P']['channel']
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@ -1014,7 +1014,6 @@ def chooseArrivals(arrivals):
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:return: arrivals but with the manual picks prefered if possible
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"""
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# If len of arrivals is greater than 2 it comes from autopicking so only autopicks are available
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print("=== CHOOSE ===")
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if len(arrivals) > 2:
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return arrivals
|
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if arrivals['auto'] and arrivals['manual']:
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@ -41,7 +41,8 @@ class Thread(QThread):
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exctype, value = sys.exc_info()[:2]
|
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self._executedErrorInfo = '{} {} {}'. \
|
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format(exctype, value, traceback.format_exc())
|
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sys.stdout = self.old_stdout
|
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if self.redirect_stdout:
|
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sys.stdout = self.old_stdout
|
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|
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def showProgressbar(self):
|
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if self.progressText:
|
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|
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@ -5663,9 +5663,23 @@ class ChooseWaveFormWindow(QWidget):
|
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def submit(self):
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||||
matplotlib.pyplot.close(self.currentSpectro)
|
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t = self.chooseBoxTraces.currentText() + " " + self.chooseBoxComponent.currentText()
|
||||
self.currentSpectro = self.traces[
|
||||
self.chooseBoxTraces.currentText()[3:]][self.chooseBoxComponent.currentText()].spectrogram(show=False, title=t)
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self.currentSpectro.show()
|
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#self.currentSpectro = self.traces[
|
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# self.chooseBoxTraces.currentText()[3:]][self.chooseBoxComponent.currentText()].spectrogram(show=False, title=t)
|
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#self.currentSpectro.show()
|
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applyFFT()
|
||||
|
||||
def applyFFT(self, trace):
|
||||
tra = self.traces[self.chooseBoxTraces.currentText()[3:]]['Z']
|
||||
transformed = abs(np.fft.rfft(tra.data))
|
||||
print ( transformed )
|
||||
matplotlib.pyplot.plot ( transformed )
|
||||
matplotlib.pyplot.show()
|
||||
|
||||
def applyFFTs(self, tra):
|
||||
transformed = abs(np.fft.rfft(tra.data))
|
||||
print ( transformed )
|
||||
matplotlib.pyplot.plot ( transformed )
|
||||
matplotlib.pyplot.show()
|
||||
|
||||
def submitN(self):
|
||||
matplotlib.pyplot.close(self.currentSpectro)
|
||||
@ -5681,13 +5695,6 @@ class ChooseWaveFormWindow(QWidget):
|
||||
self.chooseBoxTraces.currentText()[3:]]['E'].spectrogram(show=False, title=t)
|
||||
self.currentSpectro.show()
|
||||
|
||||
def submitZ(self):
|
||||
matplotlib.pyplot.close(self.currentSpectro)
|
||||
t = self.chooseBoxTraces.currentText() + " " + self.chooseBoxComponent.currentText()
|
||||
self.currentSpectro = self.traces[
|
||||
self.chooseBoxTraces.currentText()[3:]]['Z'].spectrogram(show=False, title=t)
|
||||
self.currentSpectro.show()
|
||||
|
||||
# Creates a QComboBox and adds all traces provided
|
||||
def createComboBoxTraces(self):
|
||||
if len(self.wFs) <= 0:
|
||||
@ -5714,7 +5721,87 @@ class ChooseWaveFormWindow(QWidget):
|
||||
pass
|
||||
|
||||
|
||||
class SpectrogramTab(QWidget):
|
||||
def __init__(self, traces, wfdata, parent=None):
|
||||
super(SpectrogramTab, self).__init__(parent)
|
||||
self.setupUi()
|
||||
self.traces = traces
|
||||
self.wfdata = wfdata
|
||||
|
||||
def setupUi(self):
|
||||
pass
|
||||
def makeSpecFig(self, direction = 'Z', height = 0, width = 0, parent = None):
|
||||
|
||||
i = 0
|
||||
grams = []
|
||||
figure, axis = matplotlib.pyplot.subplots(len(self.traces), sharex=True)
|
||||
|
||||
start, end = full_range(self.wfdata)
|
||||
|
||||
if height != 0 and width != 0:
|
||||
figure.figsize = (width, height)
|
||||
figure.set_figwidth = width
|
||||
figure.set_figheight = height
|
||||
|
||||
#figure.tight_layout()
|
||||
|
||||
for t in self.traces:
|
||||
tra = self.traces[t][direction]
|
||||
#print(start, end)
|
||||
|
||||
# Set Title
|
||||
if i == 0:
|
||||
if direction == 'Z':
|
||||
figure.suptitle("section: vertical components")
|
||||
elif direction == 'E':
|
||||
figure.suptitle("section: east-west components")
|
||||
elif direction == 'N':
|
||||
figure.suptitle("section: north-south components")
|
||||
axis[i].vlines(0, axis[i].get_ylim()[0], axis[i].get_ylim()[1],
|
||||
colors='m', linestyles='dashed',
|
||||
linewidth=2)
|
||||
|
||||
# Different axis settings for visual improvements
|
||||
# axis[i].set_xlim(left=0, right=end - start)
|
||||
# axis[i].spines['top'].set_visible(False)
|
||||
# axis[i].spines['right'].set_visible(False)
|
||||
# # axis[i].spines['left'].set_visible(False)
|
||||
|
||||
# axis[i].tick_params(axis='x', which='both', bottom=False, top=False, labelbottom=False)
|
||||
# if not (len(self.traces) == i - 1):
|
||||
# axis[i].spines['bottom'].set_visible(False)
|
||||
# axis[i].set_yticks([])
|
||||
# axis[i].set_ylabel(t, loc='center', rotation='horizontal')
|
||||
|
||||
#ax.axhline(n, color="0.5", lw=0.5)
|
||||
|
||||
|
||||
grams.append(tra.spectrogram(show=False, axes=axis[i]))
|
||||
i+=1
|
||||
|
||||
#figure.setXLims([0, end - start])
|
||||
figure.set_tight_layout(True)
|
||||
fC = FigureCanvas(figure)
|
||||
return fC
|
||||
|
||||
#for t in self.traces:
|
||||
# tra = self.traces[t]['Z']
|
||||
# transformed = abs(np.fft.rfft(tra.data))
|
||||
# axis[i].plot(transformed, label=t)
|
||||
# # axis[i].tick_params(labelbottom=False)
|
||||
# axis[i].spines['top'].set_visible(False)
|
||||
# axis[i].spines['right'].set_visible(False)
|
||||
# axis[i].spines['left'].set_visible(False)
|
||||
# if not (len(self.traces) == i - 1):
|
||||
# axis[i].spines['bottom'].set_visible(False)
|
||||
# axis[i].set_yticks([])
|
||||
# axis[i].set_ylabel(t, loc='center', rotation='horizontal')
|
||||
# # axis[i].axis('off')
|
||||
# i += 1
|
||||
# # self.applyFFTs(t)
|
||||
|
||||
|
||||
if __name__ == '__main__':
|
||||
import doctest
|
||||
|
||||
doctest.testmod()
|
||||
doctest.testmod()
|
||||
|
||||
Loading…
Reference in New Issue
Block a user