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Refrapick.py
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##Refrapy - Seismic Refraction Data Analysis
##Refrapick - First-break picking
##Author: Victor Guedes, MSc
##E-mail: [email protected]
from matplotlib import pyplot as plt
from matplotlib.backends.backend_tkagg import FigureCanvasTkAgg, NavigationToolbar2Tk
from matplotlib.colors import is_color_like
from matplotlib import lines, markers
from tkinter import Tk, Toplevel, Frame, Button, Label, filedialog, messagebox, PhotoImage, simpledialog
from os import path, makedirs, getcwd
from obspy import read
from obspy.signal.filter import lowpass, highpass
from scipy.signal import resample
from scipy.interpolate import interp1d
from numpy import array, where, polyfit, isclose
from Pmw import initialise, Balloon
import warnings
warnings.filterwarnings('ignore')
class Refrapick(Tk):
def __init__(self):
super().__init__()
self.geometry("1600x900")
self.title('Refrapy - Refrapick v2.0.0')
self.configure(bg = "#F0F0F0")
self.resizable(0,0)
frame_toolbar = Frame(self)
frame_toolbar.grid(row=0,column=0,sticky="WE")
self.iconbitmap("%s/images/ico_refrapy.ico"%getcwd())
photo = PhotoImage(file="%s/images/ico_refrapy.gif"%getcwd())
labelPhoto = Label(frame_toolbar, image = photo, width = 151)
labelPhoto.image = photo
labelPhoto.grid(row=0, column =0, sticky="W")
self.statusLabel = Label(frame_toolbar, text = "Create or load a project to start", font=("Arial", 11))
self.statusLabel.grid(row = 0, column = 33, sticky = "W")
initialise(self)
self.ico_openWaveform = PhotoImage(file="%s/images/abrir.gif"%getcwd())
self.ico_savePicks = PhotoImage(file="%s/images/salvar.gif"%getcwd())
self.ico_nextWf = PhotoImage(file="%s/images/proximo.gif"%getcwd())
self.ico_previousWf = PhotoImage(file="%s/images/voltar.gif"%getcwd())
self.ico_expandY = PhotoImage(file="%s/images/baixo.gif"%getcwd())
self.ico_zoomY = PhotoImage(file="%s/images/cima.gif"%getcwd())
self.ico_moreGain = PhotoImage(file="%s/images/mais.gif"%getcwd())
self.ico_lessGain = PhotoImage(file="%s/images/menos.gif"%getcwd())
self.ico_invertY = PhotoImage(file="%s/images/invert.gif"%getcwd())
self.ico_trim = PhotoImage(file="%s/images/cortar.gif"%getcwd())
self.ico_wiggles = PhotoImage(file="%s/images/fill_null.gif"%getcwd())
self.ico_fillNeg = PhotoImage(file="%s/images/fill_neg.gif"%getcwd())
self.ico_fillPos = PhotoImage(file="%s/images/fill_pos.gif"%getcwd())
self.ico_clip = PhotoImage(file="%s/images/clip.gif"%getcwd())
self.ico_filters = PhotoImage(file="%s/images/ico_filter.gif"%getcwd())
self.ico_pick = PhotoImage(file="%s/images/pick.gif"%getcwd())
self.ico_connectPick = PhotoImage(file="%s/images/ligar.gif"%getcwd())
self.ico_clearPicks = PhotoImage(file="%s/images/limpar.gif"%getcwd())
self.ico_velMode = PhotoImage(file="%s/images/vel.gif"%getcwd())
self.ico_tt = PhotoImage(file="%s/images/grafico.gif"%getcwd())
self.ico_options = PhotoImage(file="%s/images/opt.gif"%getcwd())
self.ico_reset = PhotoImage(file="%s/images/fechar.gif"%getcwd())
self.ico_newProject = PhotoImage(file="%s/images/ico_newProject.gif"%getcwd())
self.ico_loadProject = PhotoImage(file="%s/images/ico_loadProject.gif"%getcwd())
self.ico_resample = PhotoImage(file="%s/images/ico_resample.gif"%getcwd())
self.ico_survey = PhotoImage(file="%s/images/ico_survey.gif"%getcwd())
self.ico_shotTime = PhotoImage(file="%s/images/ico_shotTime.gif"%getcwd())
self.ico_loadPicks = PhotoImage(file="%s/images/ico_loadPicks.gif"%getcwd())
self.ico_allPicks = PhotoImage(file="%s/images/ico_allPicks.gif"%getcwd())
self.ico_restoreTraces = PhotoImage(file="%s/images/ico_restoreTraces.gif"%getcwd())
self.ico_help = PhotoImage(file="%s/images/ico_help.gif"%getcwd())
self.ico_plotOptions = PhotoImage(file="%s/images/ico_plotOptions.gif"%getcwd())
bt = Button(frame_toolbar,image = self.ico_newProject,command = self.createProject,width=25)
bt.grid(row = 0, column = 1, sticky="W")
bl = Balloon(self)
bl.bind(bt,"Create new project path")
bt = Button(frame_toolbar,image = self.ico_loadProject,command = self.loadProject,width=25)
bt.grid(row = 0, column = 2, sticky="W")
b = Balloon(self)
b.bind(bt,"Load project path")
bt = Button(frame_toolbar, image = self.ico_openWaveform,command = self.openWaveform)
bt.grid(row = 0, column = 3, sticky="W")
b = Balloon(self)
b.bind(bt,"Open waveform file(s)")
bt = Button(frame_toolbar, image = self.ico_previousWf,command = self.previousSection,width=25)
bt.grid(row = 0, column = 4, sticky="W")
bl = Balloon(self)
bl.bind(bt,"Previous file")
bt = Button(frame_toolbar,image = self.ico_nextWf, command = self.nextSection,width=25)
bt.grid(row = 0, column = 5, sticky="W")
bl = Balloon(self)
bl.bind(bt,"Next file")
bt = Button(frame_toolbar,image = self.ico_expandY ,command = self.yLimUp,width=25)
bt.grid(row = 0, column = 6, sticky="W")
bl = Balloon(self)
bl.bind(bt,"Decrease time axis limit")
bt = Button(frame_toolbar,image = self.ico_zoomY,command = self.yLimDown,width=25)
bt.grid(row = 0, column = 7, sticky="W")
bl = Balloon(self)
bl.bind(bt,"Increase time axis limit")
bt = Button(frame_toolbar,image = self.ico_moreGain,command = self.addGain,width=25)
bt.grid(row = 0, column = 8, sticky="W")
bl = Balloon(self)
bl.bind(bt,"Increase scale gain")
bt = Button(frame_toolbar,image = self.ico_lessGain ,command = self.removeGain,width=25)
bt.grid(row = 0, column = 9, sticky="W")
bl = Balloon(self)
bl.bind(bt,"Decrease scale gain")
bt = Button(frame_toolbar,image=self.ico_fillNeg,command = self.fillPositive,width=25)
bt.grid(row = 0, column = 10, sticky="W")
bl = Balloon(self)
bl.bind(bt,"Fill positive side of amplitudes")
bt = Button(frame_toolbar,image=self.ico_fillPos,command = self.fillNegative,width=25)
bt.grid(row = 0, column = 11, sticky="W")
bl = Balloon(self)
bl.bind(bt,"Fill negative side of amplitudes")
bt = Button(frame_toolbar,image=self.ico_wiggles,command = self.wigglesOnly,width=25)
bt.grid(row = 0, column = 12, sticky="W")
bl = Balloon(self)
bl.bind(bt,"No filling (wiggles only)")
bt = Button(frame_toolbar,image=self.ico_clip,command = self.clipAmplitudes,width=25)
bt.grid(row = 0, column = 13, sticky="W")
bl = Balloon(self)
bl.bind(bt,"Clip/unclip amplitudes")
bt = Button(frame_toolbar,image=self.ico_shotTime,command = self.correctShotTime,width=25)
bt.grid(row = 0, column = 14, sticky="W")
bl = Balloon(self)
bl.bind(bt,"Correct shot time (delay)")
bt = Button(frame_toolbar,image=self.ico_filters,command = self.applyFilters,width=25)
bt.grid(row = 0, column = 15, sticky="W")
bl = Balloon(self)
bl.bind(bt,"High pass/low pass filters")
bt = Button(frame_toolbar,image=self.ico_trim,command = self.trimTraces,width=25)
bt.grid(row = 0, column = 16, sticky="W")
bl = Balloon(self)
bl.bind(bt,"Trim traces")
bt = Button(frame_toolbar,image=self.ico_resample,command = self.resampleTraces,width=25)
bt.grid(row = 0, column = 17, sticky="W")
bl = Balloon(self)
bl.bind(bt,"Resample traces")
bt = Button(frame_toolbar,image=self.ico_invertY,command = self.invertTimeAxis,width=25)
bt.grid(row = 0, column = 18, sticky="W")
bl = Balloon(self)
bl.bind(bt,"Invert time axis")
bt = Button(frame_toolbar,image=self.ico_restoreTraces,command = self.restoreTraces,width=25)
bt.grid(row = 0, column = 19, sticky="W")
bl = Balloon(self)
bl.bind(bt,"Restore default traces")
bt = Button(frame_toolbar,image=self.ico_pick,command = self.pick,width=25)
bt.grid(row = 0, column = 20, sticky="W")
bl = Balloon(self)
bl.bind(bt,"Enable/disable pick mode")
bt = Button(frame_toolbar,image=self.ico_connectPick,command = self.drawPicksLine,width=25)
bt.grid(row = 0, column = 21, sticky="W")
bl = Balloon(self)
bl.bind(bt,"Connect/disconnect picks")
bt = Button(frame_toolbar,image=self.ico_clearPicks,command = self.clearPicks,width=25)
bt.grid(row = 0, column = 22, sticky="W")
bl = Balloon(self)
bl.bind(bt,"Clear picks")
bt = Button(frame_toolbar,image=self.ico_allPicks,command = self.allPicks,width=25)
bt.grid(row = 0, column = 23, sticky="W")
bl = Balloon(self)
bl.bind(bt,"Show/hide traveltimes picks from other files")
bt = Button(frame_toolbar,image = self.ico_savePicks, command = self.savePicks,width=25)
bt.grid(row = 0, column = 24, sticky="W")
bl = Balloon(self)
bl.bind(bt,"Save pick file")
bt = Button(frame_toolbar,image=self.ico_loadPicks,command = self.loadPicks,width=25)
bt.grid(row = 0, column = 25, sticky="W")
bl = Balloon(self)
bl.bind(bt,"Load pick file)")
bt = Button(frame_toolbar,image=self.ico_velMode,command = self.appVelMode,width=25)
bt.grid(row = 0, column = 26, sticky="W")
bl = Balloon(self)
bl.bind(bt,"Enable/disable apparent velocity mode")
bt = Button(frame_toolbar,image = self.ico_tt,command = self.viewTraveltimes,width=25)
bt.grid(row = 0, column = 27, sticky="W")
bl = Balloon(self)
bl.bind(bt,"View observed traveltimes")
bt = Button(frame_toolbar,image=self.ico_survey,command = self.viewSurvey,width=25)
bt.grid(row = 0, column = 28, sticky="W")
bl = Balloon(self)
bl.bind(bt,"View survey geometry")
bt = Button(frame_toolbar,image = self.ico_plotOptions,command = self.plotOptions,width=25)
bt.grid(row = 0, column = 29, sticky="W")
bl = Balloon(self)
bl.bind(bt,"Plot options")
bt = Button(frame_toolbar,image = self.ico_options,command = self.options,width=25)
bt.grid(row = 0, column = 30, sticky="W")
bl = Balloon(self)
bl.bind(bt,"Edit acquisition parameters")
bt = Button(frame_toolbar,image = self.ico_reset,command = self.reset,width=25)
bt.grid(row = 0, column = 31, sticky="W")
bl = Balloon(self)
bl.bind(bt,"Reset all")
bt = Button(frame_toolbar,image=self.ico_help,command = self.help,width=25)
bt.grid(row = 0, column = 32, sticky="W")
bl = Balloon(self)
bl.bind(bt,"Help")
self.protocol("WM_DELETE_WINDOW", self.kill)
self.initiateVariables()
def initiateVariables(self):
self.frames = []
self.figs = []
self.axs = []
self.sts = []
self.xpicks = []
self.tpicks = []
self.sources = []
self.dxs = []
self.x1s = []
self.xends = []
self.tracesArts = []
self.fillArts = []
self.gains = []
self.gainFactor = 3
self.tracesMaxs = []
self.tracesData = []
self.nchannels = []
self.tracesTime = []
self.currentSt = 0
self.fillSide = []
self.amplitudeClip = []
self.invertedTimeAxis = []
self.samplingRates = []
self.originalSamplingRates = []
self.stNames = []
self.originalTracesData = []
self.originalTracesTimes = []
self.filters = []
self.receiverPositions = []
self.picksArts = []
self.ttArts = []
self.projReady = False
self.pickMode = False
self.velMode = False
self.pickConnections = []
self.velConnections = []
self.pickLineArts = []
self.traceColor = "k"
self.fillColor = "k"
self.backgroundColor = "white"
self.grid = 1
self.gridColor = "k"
self.gridStyle = "-"
self.pickColor = "r"
self.pickMarker = "_"
self.pickLineColor = "r"
self.pickLineStyle = "--"
self.traveltimesColor = "g"
self.traveltimesStyle = "--"
self.pickSize = 100
def kill(self):
out = messagebox.askyesno("Refrapick", "Do you want to close the software?")
if out: self.destroy(); self.quit()
def nextSection(self):
if self.sts:
if self.currentSt < len(self.sts)-1:
self.currentSt += 1
if len(self.ttArts) > 0:
self.allPicks()
self.figs[self.currentSt].canvas.draw()
self.allPicks()
self.frames[self.currentSt].tkraise()
self.statusLabel.lift()
def previousSection(self):
if self.sts:
if self.currentSt > 0:
self.currentSt -= 1
if len(self.ttArts) > 0:
self.allPicks()
self.figs[self.currentSt].canvas.draw()
self.allPicks()
self.frames[self.currentSt].tkraise()
self.statusLabel.lift()
def reset(self):
if self.sts:
if messagebox.askyesno("Refrapick", "Clear all?"):
for frame in self.frames: frame.destroy()
self.initiateVariables()
self.statusLabel.configure(text="Create or load a project to start",font=("Arial", 11))
messagebox.showinfo(title="Refrapick", message="All cleared successfully!")
def plotOptions(self):
def editTraceColor():
new_color = simpledialog.askstring("Refrapick","Enter the new trace color (must be accepted by matplotlib):")
if is_color_like(new_color):
self.traceColor = new_color
if self.sts:
for i in range(len(self.sts)):
for trArt in self.tracesArts[i]:
trArt.set_color(self.traceColor)
self.figs[i].canvas.draw()
messagebox.showinfo(title="Refrapick", message="The trace color has been changed")
plotOptionsWindow.tkraise()
else: messagebox.showerror(title="Refrapick", message="Invalid color!"); plotOptionsWindow.tkraise()
def editFillColor():
new_color = simpledialog.askstring("Refrapick","Enter the new fill color (must be accepted by matplotlib):")
if is_color_like(new_color):
self.fillColor = new_color
if self.sts:
for i in range(len(self.sts)):
if self.fillSide[i] == 1: self.wigglesOnly(); self.fillPositive()
elif self.fillSide[i] == -1: self.wigglesOnly(); self.fillNegative()
messagebox.showinfo(title="Refrapick", message="The fill color has been changed")
plotOptionsWindow.tkraise()
else: messagebox.showerror(title="Refrapick", message="Invalid color!"); plotOptionsWindow.tkraise()
def editBackgroundColor():
new_color = simpledialog.askstring("Refrapick","Enter the new background color (must be accepted by matplotlib):")
if is_color_like(new_color):
self.backgroundColor = new_color
if self.sts:
for i in range(len(self.sts)):
self.axs[i].set_facecolor(self.backgroundColor)
self.figs[i].canvas.draw()
messagebox.showinfo(title="Refrapick", message="The plot background color has been changed")
plotOptionsWindow.tkraise()
else: messagebox.showerror(title="Refrapick", message="Invalid color!"); plotOptionsWindow.tkraise()
def gridOnOff():
if self.grid:
if messagebox.askyesno("Refrapick", "Disable grid?"):
self.grid = False
if self.sts:
for i in range(len(self.sts)):
self.axs[i].grid(False)
self.figs[i].canvas.draw()
messagebox.showinfo(title="Refrapick", message="The grid lines have been disabled")
else:
if messagebox.askyesno("Refrapick", "Enable grid?"):
self.grid = True
if self.sts:
for i in range(len(self.sts)):
self.axs[i].grid(lw = .5, alpha = .5, c = self.gridColor, ls = self.gridStyle)
self.figs[i].canvas.draw()
messagebox.showinfo(title="Refrapick", message="The grid lines have been enabled")
plotOptionsWindow.tkraise()
def editGridStyle():
new_style = simpledialog.askstring("Refrapick","Enter the new grid line style (must be accepted by matplotlib):")
if new_style in lines.lineStyles.keys():
self.gridStyle = new_style
if self.sts:
if self.grid:
for i in range(len(self.sts)):
self.axs[i].grid(lw = .5, alpha = .5, c = self.gridColor, ls = self.gridStyle)
self.figs[i].canvas.draw()
messagebox.showinfo(title="Refrapick", message="The grid line style has been changed")
plotOptionsWindow.tkraise()
else: messagebox.showerror(title="Refrapick", message="Invalid line style!"); plotOptionsWindow.tkraise()
def editGridColor():
new_color = simpledialog.askstring("Refrapick","Enter the new grid line color (must be accepted by matplotlib):")
if is_color_like(new_color):
self.gridColor = new_color
if self.sts:
if self.grid:
for i in range(len(self.sts)):
self.axs[i].grid(lw = .5, alpha = .5, c = self.gridColor, ls = self.gridStyle)
self.figs[i].canvas.draw()
messagebox.showinfo(title="Refrapick", message="The grid line color color has been changed")
plotOptionsWindow.tkraise()
else: messagebox.showerror(title="Refrapick", message="Invalid color!"); plotOptionsWindow.tkraise()
def editPickColor():
new_color = simpledialog.askstring("Refrapick","Enter the new pick marker color (must be accepted by matplotlib):")
if is_color_like(new_color):
self.pickColor = new_color
if self.sts:
for i in range(len(self.sts)):
if self.xpicks[i]:
for pickArt in self.picksArts[i]: pickArt.set_color(self.pickColor)
self.figs[i].canvas.draw()
messagebox.showinfo(title="Refrapick", message="The pick marker color has been changed")
plotOptionsWindow.tkraise()
else: messagebox.showerror(title="Refrapick", message="Invalid color!"); plotOptionsWindow.tkraise()
def editPickMarker():
new_marker = simpledialog.askstring("Refrapick","Enter the new pick marker style (must be accepted by matplotlib):")
if new_marker in markers.MarkerStyle.markers.keys():
new_size = simpledialog.askfloat("Refrapick","Enter the new pick marker size:")
if new_size:
self.pickSize = new_size
self.pickMarker = new_marker#markers.MarkerStyle(new_marker)
if self.sts:
for i in range(len(self.sts)):
if self.xpicks[i]:
for pickArt in self.picksArts[i]: pickArt.remove()
del self.picksArts[i][:]
for j,x in enumerate(self.xpicks[i]):
pickline = self.axs[i].scatter(x, self.tpicks[i][j], marker = self.pickMarker, s = self.pickSize*self.dxs[i], color=self.pickColor)
self.picksArts[i].append(pickline)
self.figs[i].canvas.draw()
messagebox.showinfo(title="Refrapick", message="The pick marker style has been changed")
plotOptionsWindow.tkraise()
else: messagebox.showerror(title="Refrapick", message="Invalid marker!"); plotOptionsWindow.tkraise()
def editPickLineColor():
new_color = simpledialog.askstring("Refrapick","Enter the new pick line color (must be accepted by matplotlib):")
if is_color_like(new_color):
self.pickLineColor = new_color
if self.sts:
for i in range(len(self.sts)):
if self.pickLineArts[i]:
self.pickLineArts[i].set_color(self.pickLineColor)
self.figs[i].canvas.draw()
messagebox.showinfo(title="Refrapick", message="The pick line color has been changed")
plotOptionsWindow.tkraise()
else: messagebox.showerror(title="Refrapick", message="Invalid color!"); plotOptionsWindow.tkraise()
def editPickLineStyle():
new_style = simpledialog.askstring("Refrapick","Enter the new pick line style (must be accepted by matplotlib):")
if new_style in lines.lineStyles.keys():
self.pickLineStyle = new_style
if self.sts:
for i in range(len(self.sts)):
if self.pickLineArts[i]:
self.drawPicksLine()
self.pickLineArts[i] = False
self.drawPicksLine()
self.figs[i].canvas.draw()
messagebox.showinfo(title="Refrapick", message="The pick line style has been changed")
plotOptionsWindow.tkraise()
else: messagebox.showerror(title="Refrapick", message="Invalid line style!"); plotOptionsWindow.tkraise()
def editTraveltimeLineColor():
new_color = simpledialog.askstring("Refrapick","Enter the new traveltimes line color (must be accepted by matplotlib):")
if is_color_like(new_color):
self.traveltimesColor = new_color
if self.sts:
for i in range(len(self.sts)-1):
if self.ttArts[i]:
self.ttArts[i].set_color(self.traveltimesColor)
self.figs[i].canvas.draw()
messagebox.showinfo(title="Refrapick", message="The traveltimes line color has been changed")
plotOptionsWindow.tkraise()
else: messagebox.showerror(title="Refrapick", message="Invalid color!"); plotOptionsWindow.tkraise()
def editTraveltimeLineStyle():
new_style = simpledialog.askstring("Refrapick","Enter the new traveltimes line style (must be accepted by matplotlib):")
if new_style in lines.lineStyles.keys():
self.traveltimesStyle = new_style
if self.sts:
for i in range(len(self.sts)-1):
if self.ttArts[i]:
self.allPicks()
self.figs[i].canvas.draw()
self.allPicks()
messagebox.showinfo(title="Refrapick", message="The traveltimes line style has been changed")
plotOptionsWindow.tkraise()
else: messagebox.showerror(title="Refrapick", message="Invalid line style!"); plotOptionsWindow.tkraise()
def editrGainFactor():
new_gainFactor = simpledialog.askfloat("Refrapick","Enter the new gain factor (default is 3):")
if new_gainFactor:
self.gainFacotr = new_gainFactor
messagebox.showinfo(title="Refrapick", message="The gain factor has been changed")
plotOptionsWindow = Toplevel(self)
plotOptionsWindow.title('Refrapick - Plot options')
plotOptionsWindow.configure(bg = "#F0F0F0")
plotOptionsWindow.geometry("350x520")
plotOptionsWindow.resizable(0,0)
plotOptionsWindow.iconbitmap("%s/images/ico_refrapy.ico"%getcwd())
Label(plotOptionsWindow, text = "Plot options",font=("Arial", 11)).grid(row=0,column=0,sticky="EW",pady=5,padx=65)
Button(plotOptionsWindow,text="Change trace color", command = editTraceColor, width = 30).grid(row = 1, column = 0,pady=5,padx=65)
Button(plotOptionsWindow,text="Change fill color", command = editFillColor, width = 30).grid(row = 2, column = 0,pady=5,padx=65)
Button(plotOptionsWindow,text="Change background color", command = editBackgroundColor, width = 30).grid(row = 3, column = 0,pady=5,padx=65)
Button(plotOptionsWindow,text="Enable/disable grid lines", command = gridOnOff, width = 30).grid(row = 4, column = 0,pady=5,padx=65)
Button(plotOptionsWindow,text="Change grid lines style", command = editGridStyle, width = 30).grid(row = 5, column = 0,pady=5,padx=65)
Button(plotOptionsWindow,text="Change grid lines color", command = editGridColor, width = 30).grid(row = 6, column = 0,pady=5,padx=65)
Button(plotOptionsWindow,text="Change pick color", command = editPickColor, width = 30).grid(row = 7, column = 0,pady=5,padx=65)
Button(plotOptionsWindow,text="Change pick marker", command = editPickMarker, width = 30).grid(row = 8, column = 0,pady=5,padx=65)
Button(plotOptionsWindow,text="Change pick line color", command = editPickLineColor, width = 30).grid(row = 9, column = 0,pady=5,padx=65)
Button(plotOptionsWindow,text="Change pick line style", command = editPickLineStyle, width = 30).grid(row = 10, column = 0,pady=5,padx=65)
Button(plotOptionsWindow,text="Change traveltimes line color", command = editTraveltimeLineColor, width = 30).grid(row = 11, column = 0,pady=5,padx=65)
Button(plotOptionsWindow,text="Change traveltimes line style", command = editTraveltimeLineStyle, width = 30).grid(row = 12, column = 0,pady=5,padx=65)
Button(plotOptionsWindow,text="Change scale gain factor", command = editrGainFactor, width = 30).grid(row = 13, column = 0,pady=5,padx=65)
plotOptionsWindow.tkraise()
def options(self):
if self.sts:
def editdx():
new_dx = simpledialog.askfloat("Refrapick","Enter the new receiver spacing in meters (for %s):"%self.stNames[self.currentSt])
if new_dx != None:
if new_dx > 0:
if self.xpicks[self.currentSt]: self.clearPicks()
self.receiverPositions[self.currentSt] = [i/self.dxs[self.currentSt] for i in self.receiverPositions[self.currentSt]]
self.xends[self.currentSt] = self.xends[self.currentSt]/self.dxs[self.currentSt]
self.dxs[self.currentSt] = new_dx
self.receiverPositions[self.currentSt] = [i*self.dxs[self.currentSt] for i in self.receiverPositions[self.currentSt]]
self.xends[self.currentSt] = self.xends[self.currentSt]*self.dxs[self.currentSt]
for i in range(len(self.tracesArts[self.currentSt])):
a = self.tracesData[self.currentSt][i]
self.tracesArts[self.currentSt][i].set_xdata(a/max(a)*self.gains[self.currentSt]+self.x1s[self.currentSt]+self.dxs[self.currentSt]*i)
self.axs[self.currentSt].set_xlim(self.x1s[self.currentSt]-self.dxs[self.currentSt]/2, self.xends[self.currentSt]+self.dxs[self.currentSt]/2)
self.updatePlotTitle()
if self.fillSide[self.currentSt] == 1: self.fillPositive()
elif self.fillSide[self.currentSt] == -1: self.fillNegative()
if self.amplitudeClip[self.currentSt] == 1: self.amplitudeClip[self.currentSt] = 0; self.clipAmplitudes()
messagebox.showinfo(title="Refrapick", message="The receiver spacing was updated in %s"%self.stNames[self.currentSt])
optionsWindow.tkraise()
else: messagebox.showerror(title="Refrapick", message="Invalid dx value!")
def editx1():
new_x1 = simpledialog.askfloat("Refrapick","Enter the new position for the first receiver in meters (for %s):"%self.stNames[self.currentSt])
if new_x1:
if self.xpicks[self.currentSt]: self.clearPicks()
self.x1s[self.currentSt] = new_x1
self.xends[self.currentSt] = self.xends[self.currentSt]+new_x1
self.receiverPositions[self.currentSt] = [i+new_x1 for i in self.receiverPositions[self.currentSt]]
for i in range(len(self.tracesArts[self.currentSt])):
a = self.tracesData[self.currentSt][i]
self.tracesArts[self.currentSt][i].set_xdata(a/max(a)*self.gains[self.currentSt]+self.x1s[self.currentSt]+self.dxs[self.currentSt]*i)
self.axs[self.currentSt].set_xlim(self.x1s[self.currentSt]-self.dxs[self.currentSt]/2, self.xends[self.currentSt]+self.dxs[self.currentSt]/2)
if self.fillSide[self.currentSt] == 1: self.fillPositive()
elif self.fillSide[self.currentSt] == -1: self.fillNegative()
if self.amplitudeClip[self.currentSt] == 1: self.amplitudeClip[self.currentSt] = 0; self.clipAmplitudes()
self.axs[self.currentSt].set_xlim(self.x1s[self.currentSt]-self.dxs[self.currentSt]/2, self.xends[self.currentSt]+self.dxs[self.currentSt]/2)
self.figs[self.currentSt].canvas.draw()
messagebox.showinfo(title="Refrapick", message="The position of the first receiver was updated in %s"%self.stNames[self.currentSt])
optionsWindow.tkraise()
def editsource():
new_source = simpledialog.askfloat("Refrapick","Enter the new source position in meters (for %s):"%self.stNames[self.currentSt])
if new_source != None:
self.sources[self.currentSt] = new_source
self.updatePlotTitle()
messagebox.showinfo(title="Refrapick", message="The source position was updated in %s"%self.stNames[self.currentSt])
optionsWindow.tkraise()
optionsWindow = Toplevel(self)
optionsWindow.title('Refrapick - Edit parameters')
optionsWindow.configure(bg = "#F0F0F0")
optionsWindow.geometry("350x170")
optionsWindow.resizable(0,0)
optionsWindow.iconbitmap("%s/images/ico_refrapy.ico"%getcwd())
Label(optionsWindow, text = "Editing parameters in %s"%self.stNames[self.currentSt],font=("Arial", 11)).grid(row=0,column=0,sticky="EW",pady=5,padx=65)
Button(optionsWindow,text="Edit receiver spacing", command = editdx, width = 30).grid(row = 1, column = 0,pady=5,padx=65)
Button(optionsWindow,text="Edit first receiver position", command = editx1, width = 30).grid(row = 2, column = 0,pady=5,padx=65)
Button(optionsWindow,text="Edit source position", command = editsource, width = 30).grid(row = 3, column = 0,pady=5,padx=65)
optionsWindow.tkraise()
def correctShotTime(self):
if self.sts:
delay = simpledialog.askfloat("Refrapick","Enter the delay time in seconds to correct shot time:")
if delay:
for i in range(len(self.sts)):
for j in range(len(self.tracesArts[self.currentSt])):
self.tracesArts[i][j].set_ydata(self.tracesTime[i][j]+delay)
self.tracesTime[i][j]+=delay
if self.invertedTimeAxis[i] == 0: self.axs[i].set_ylim(min(self.tracesTime[i][0]), max(self.tracesTime[i][0]))
else:
self.axs[i].invert_yaxis()
self.axs[i].set_ylim(min(self.tracesTime[i][0]), max(self.tracesTime[i][0]))
self.axs[i].invert_yaxis()
self.figs[i].canvas.draw()
if self.fillSide[i] == 1: self.fillPositive()
elif self.fillSide[i] == -1: self.fillNegative()
if self.amplitudeClip[i] == 1: self.amplitudeClip[i] = 0; self.clipAmplitudes()
messagebox.showinfo(title="Refrapick", message="Shot time has been corrected for all opened waveforms!")
def createProject(self):
self.projPath = filedialog.askdirectory()
if self.projPath:
projName = simpledialog.askstring("Refrapick","Enter the name of the project to be created:")
if not path.exists(self.projPath+"/"+projName):
makedirs(self.projPath+"/"+projName)
local = self.projPath+"/"+projName+"/"
makedirs(local+"data")
self.p_data = local+"data/"
makedirs(local+"picks")
self.p_picks = local+"picks/"
makedirs(local+"models")
self.p_models = local+"models/"
makedirs(local+"gps")
self.p_gps = local+"gps/"
self.projPath = local
self.projReady = True
messagebox.showinfo(title="Refrapick", message="Successfully created the project!")
self.statusLabel.configure(text="Project path ready!",font=("Arial", 11))
else:
messagebox.showinfo(title="Refrapick", message="A project was detected, please choose another name or directory!")
def loadProject(self):
self.projPath = filedialog.askdirectory()
if self.projPath:
if path.exists(self.projPath+"/"+"data") and \
path.exists(self.projPath+"/"+"picks") and \
path.exists(self.projPath+"/"+"models") and \
path.exists(self.projPath+"/"+"gps"):
self.p_data = self.projPath+"/"+"data/"
self.p_picks = self.projPath+"/"+"picks/"
self.p_models = self.projPath+"/"+"models/"
self.p_gps = self.projPath+"/"+"gps/"
self.projReady = True
messagebox.showinfo(title="Refrapick", message="Successfully loaded the project path!")
self.statusLabel.configure(text="Project path ready!",font=("Arial", 11))
else: messagebox.showerror(title="Refrapick", message="Not all folders were detected!\nPlease, check the structure of the selected project.")
def openWaveform(self):
if self.projReady:
if self.pickMode: self.pick()
if self.velMode: self.appVelMode()
files = filedialog.askopenfilenames(title='Open', initialdir = self.projPath+"/data/", filetypes=[('SEG2 file', '*.dat'),
('SEGY file', '*.sgy'),
('SU file', '*.su')])
if files:
if self.sts: n = len(self.sts)
else: n = 0
for i, file in enumerate(files):
st = read(file)
if st[0].stats._format == "SEG2":
dx = float(st[1].stats.seg2['RECEIVER_LOCATION'])-float(st[0].stats.seg2['RECEIVER_LOCATION'])
delay = float(st[0].stats.seg2['DELAY'])
source = float(st[0].stats.seg2['SOURCE_LOCATION'])
x1 = float(st[0].stats.seg2['RECEIVER_LOCATION'])
xend = float(st[-1].stats.seg2['RECEIVER_LOCATION'])
else:
dx = simpledialog.askfloat("Refrapick","Enter the receiver spacing (in meters) for %s:"%path.basename(file))
if dx == None or dx <= 0: dx = 1; messagebox.showinfo('Refrapick','No valid dx entered: dx = 1 m will be assigned to %s'%path.basename(file))
x1 = simpledialog.askfloat("Refrapick","Enter the first receiver position (in meters) for %s:"%path.basename(file))
if x1 == None: x1 = 0; messagebox.showinfo('Refrapick','No x1 value entered: x1 = 0 m will be assigned to %s'%path.basename(file))
source = simpledialog.askfloat("Refrapick","Enter the source position (in meters) for %s:"%path.basename(file))
if source == None: source = -1; messagebox.showinfo('Refrapick','No source value entered: source = -1 m will be assigned to %s'%path.basename(file))
delay = simpledialog.askfloat("Refrapick","Enter the delay for shot time correction (in seconds) for %s:"%path.basename(file))
if delay == None: delay = 0; messagebox.showinfo('Refrapick','No delay time entered: delay = 0 s will be used for %s'%path.basename(file))
xend = x1+dx*(len(st)-1)
self.dxs.append(dx)
self.sources.append(source)
self.x1s.append(x1)
self.xends.append(xend)
self.nchannels.append(len(st))
self.samplingRates.append(int(st[0].stats['sampling_rate']))
self.originalSamplingRates.append(int(st[0].stats['sampling_rate']))
frame = Frame(self)
frame.grid(row = 1, column = 0, sticky = "WE")
fig = plt.figure(figsize = (15.9,8.1))
canvas = FigureCanvasTkAgg(fig, frame)
canvas.draw()
toolbar = NavigationToolbar2Tk(canvas, frame)
toolbar.update()
canvas._tkcanvas.pack()
ax = fig.add_subplot(111)
fig.patch.set_facecolor('#F0F0F0')
ax.set_facecolor(self.backgroundColor)
self.tracesMaxs.append([])
self.tpicks.append([])
self.xpicks.append([])
self.frames.append(frame)
self.axs.append(ax)
self.figs.append(fig)
self.sts.append(st)
self.tracesArts.append([])
self.pickLineArts.append(False)
self.fillArts.append([])
self.tracesData.append([])
self.tracesTime.append([])
self.pickConnections.append([False,False,False,False])
self.velConnections.append([False,False,False])
self.originalTracesData.append([])
self.originalTracesTimes.append([])
self.receiverPositions.append([])
self.gains.append(1)
self.fillSide.append(0)
self.amplitudeClip.append(0)
self.invertedTimeAxis.append(1)
self.filters.append([False,False])
self.picksArts.append([])
for j, tr in enumerate(st):
tr.data *= -1
self.tracesMaxs[i+n].append(max(tr.data))
t, = ax.plot(tr.data/max(tr.data)+x1+dx*j, tr.times()+delay, c = self.traceColor, lw = .7)
self.tracesArts[i+n].append(t)
self.tracesData[i+n].append(tr.data)
self.tracesTime[i+n].append(tr.times()+delay)
self.originalTracesData[i+n].append(tr.data)
self.originalTracesTimes[i+n].append(tr.times()+delay)
if st[0].stats._format == "SEG2": self.receiverPositions[i+n].append(float(tr.stats.seg2['RECEIVER_LOCATION']))
else: self.receiverPositions[i+n].append(x1+j*dx)
ax.set_ylabel("TIME [s]")
ax.set_xlabel("RECEIVER POSITION [m]")
if self.grid: ax.grid(lw = .5, alpha = .5, c = self.gridColor, ls = self.gridStyle)
ax.set_title(path.basename(file)+" | dx = %.2f m | source = %.2f m | sampling = %d Hz | filters = no"%(dx,source,self.originalSamplingRates[i]))
self.stNames.append(path.basename(file))
ax.set_ylim(min(tr.times()+delay), max(tr.times()+delay))
ax.set_xlim(x1-dx/2, xend+dx/2)
ax.invert_yaxis()
for f in self.figs: f.canvas.draw()
self.frames[0].tkraise()
self.statusLabel.lift()
self.statusLabel.configure(text="Waveform(s) ready!",font=("Arial", 11))
self.currentSt = 0
if n == 0: messagebox.showinfo('Refrapick','%d file(s) loaded succesfully!'%len(files))
else: messagebox.showinfo('Refrapick','%d new file(s) loaded succesfully!'%len(files))
def help(self):
helpWindow = Toplevel(self)
helpWindow.title('Refrapick - Help')
helpWindow.configure(bg = "#F0F0F0")
helpWindow.resizable(0,0)
helpWindow.iconbitmap("%s/images/ico_refrapy.ico"%getcwd())
Label(helpWindow, text = """Refrapy - Refrapick v2.0.0
Refrapick provides tools for basic waveform processing and first-breaks picking on seismic refraction data.
If you use Refrapy in your work, please consider citing the following paper:
Guedes, V.J.C.B., Maciel, S.T.R., Rocha, M.P., 2022. Refrapy: A Python program for seismic refraction data analysis,
Computers and Geosciences. https://doi.org/10.1016/j.cageo.2021.105020.
To report a bug and for more information, please visit github.com/viictorjs/Refrapy.
Author: Victor Guedes, MSc
E-mail: [email protected]
""",font=("Arial", 11)).pack()
helpWindow.tkraise()
def viewSurvey(self):
if self.sts:
surveyWindow = Toplevel(self)
surveyWindow.title('Refrapick - View survey')
surveyWindow.configure(bg = "#F0F0F0")
surveyWindow.resizable(0,0)
surveyWindow.iconbitmap("%s/images/ico_refrapy.ico"%getcwd())
frame = Frame(surveyWindow, width=20, height=20)
frame.grid(row = 0, column = 0)
fig = plt.figure(figsize = (14.2,8.62))