slimmed down the code
This commit is contained in:
Marcel Paffrath
parent
b700940f54
commit
f192a72ad7
@ -6,83 +6,27 @@ def vgrids2VTK(inputfile = 'vgrids.in', outputfile = 'vgrids.vtk', absOrRel = 'a
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'''
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Generate a vtk-file readable by e.g. paraview from FMTOMO output vgrids.in
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'''
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def getDistance(angle):
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PI = np.pi
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R = 6371.
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distance = angle / 180 * (PI * R)
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return distance
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def readNumberOfPoints(filename):
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fin = open(filename, 'r')
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vglines = fin.readlines()
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nR = int(vglines[1].split()[0])
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nTheta = int(vglines[1].split()[1])
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nPhi = int(vglines[1].split()[2])
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print('readNumberOf Points: Awaiting %d grid points in %s'
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%(nR*nTheta*nPhi, filename))
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fin.close()
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return nR, nTheta, nPhi
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def readDelta(filename):
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fin = open(filename, 'r')
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vglines = fin.readlines()
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dR = float(vglines[2].split()[0])
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dTheta = float(vglines[2].split()[1])
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dPhi = float(vglines[2].split()[2])
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fin.close()
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return dR, dTheta, dPhi
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def readStartpoints(filename):
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fin = open(filename, 'r')
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vglines = fin.readlines()
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sR = float(vglines[3].split()[0])
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sTheta = float(vglines[3].split()[1])
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sPhi = float(vglines[3].split()[2])
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fin.close()
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return sR, sTheta, sPhi
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def readVelocity(filename):
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'''
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Reads in velocity from vgrids file and returns a list containing all values in the same order
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'''
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vel = []; count = 0
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fin = open(filename, 'r')
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vglines = fin.readlines()
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for line in vglines:
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count += 1
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if count > 4:
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vel.append(float(line.split()[0]))
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print("Read %d points out of file: %s" %(count - 4, filename))
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return vel
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R = 6371. # earth radius
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outfile = open(outputfile, 'w')
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# Theta, Phi in radians, R in km
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nR, nTheta, nPhi = readNumberOfPoints(inputfile)
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dR, dTheta, dPhi = readDelta(inputfile)
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sR, sTheta, sPhi = readStartpoints(inputfile)
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vel = readVelocity(inputfile)
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number, delta, start, vel = _readVgrid(inputfile)
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nR, nTheta, nPhi = number
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dR, dTheta, dPhi = delta
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sR, sTheta, sPhi = start
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thetaGrid, phiGrid, rGrid = _generateGrids(number, delta, start)
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nPoints = nR * nTheta * nPhi
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nX = nPhi; nY = nTheta; nZ = nR
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sZ = sR - R
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sX = getDistance(np.rad2deg(sPhi))
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sY = getDistance(np.rad2deg(sTheta))
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dX = getDistance(np.rad2deg(dPhi))
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dY = getDistance(np.rad2deg(dTheta))
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nPoints = nX * nY * nZ
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sX = _getDistance(sPhi)
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sY = _getDistance(sTheta)
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dX = _getDistance(dPhi)
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dY = _getDistance(dTheta)
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dZ = dR
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# write header
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@ -109,7 +53,8 @@ def vgrids2VTK(inputfile = 'vgrids.in', outputfile = 'vgrids.vtk', absOrRel = 'a
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for velocity in vel:
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outfile.writelines('%10f\n' %velocity)
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elif absOrRel == 'rel':
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velref = readVelocity(inputfileref)
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nref, dref, sref, velref = _readVgrid(inputfileref)
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nR_ref, nTheta_ref, nPhi_ref = nref
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if not len(velref) == len(vel):
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print('ERROR: Number of gridpoints mismatch for %s and %s'%(inputfile, inputfileref))
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return
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@ -122,7 +67,6 @@ def vgrids2VTK(inputfile = 'vgrids.in', outputfile = 'vgrids.vtk', absOrRel = 'a
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else:
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velrel.append(0)
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nR_ref, nTheta_ref, nPhi_ref = readNumberOfPoints(inputfileref)
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if not nR_ref == nR and nTheta_ref == nTheta and nPhi_ref == nPhi:
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print('ERROR: Dimension mismatch of grids %s and %s'%(inputfile, inputfileref))
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return
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@ -142,12 +86,6 @@ def rays2VTK(fnin, fdirout = './vtk_files/', nthPoint = 50):
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:param: nthPoint, plot every nth point of the ray
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:type: integer
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'''
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def getDistance(angle):
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PI = np.pi
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R = 6371.
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distance = angle / 180 * (PI * R)
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return distance
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infile = open(fnin, 'r')
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R = 6371
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rays = {}
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@ -155,7 +93,6 @@ def rays2VTK(fnin, fdirout = './vtk_files/', nthPoint = 50):
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nPoints = 0
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### NOTE: rays.dat seems to be in km and radians
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while True:
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raynumber += 1
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firstline = infile.readline()
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@ -173,7 +110,7 @@ def rays2VTK(fnin, fdirout = './vtk_files/', nthPoint = 50):
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for index in range(nRayPoints):
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if index % nthPoint is 0 or index == (nRayPoints - 1):
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rad, lat, lon = infile.readline().split()
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rays[shotnumber][raynumber].append([getDistance(np.rad2deg(float(lon))), getDistance(np.rad2deg(float(lat))), float(rad) - R])
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rays[shotnumber][raynumber].append([_getDistance(np.rad2deg(float(lon))), _getDistance(np.rad2deg(float(lat))), float(rad) - R])
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else:
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dummy = infile.readline()
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@ -199,7 +136,6 @@ def rays2VTK(fnin, fdirout = './vtk_files/', nthPoint = 50):
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# write coordinates
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#print("Writing coordinates to VTK file...")
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for raynumber in rays[shotnumber].keys():
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for raypoint in rays[shotnumber][raynumber]:
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outfile.writelines('%10f %10f %10f \n' %(raypoint[0], raypoint[1], raypoint[2]))
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@ -208,7 +144,6 @@ def rays2VTK(fnin, fdirout = './vtk_files/', nthPoint = 50):
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# write indices
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#print("Writing indices to VTK file...")
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count = 0
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for raynumber in rays[shotnumber].keys():
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outfile.writelines('%d ' %(len(rays[shotnumber][raynumber])))
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@ -217,29 +152,7 @@ def rays2VTK(fnin, fdirout = './vtk_files/', nthPoint = 50):
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count += 1
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outfile.writelines('\n')
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# outfile.writelines('POINT_DATA %15d\n' %(nPoints))
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# outfile.writelines('SCALARS rays float %d\n' %(1))
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# outfile.writelines('LOOKUP_TABLE default\n')
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# # write velocity
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# print("Writing velocity values to VTK file...")
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# for velocity in vel:
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# outfile.writelines('%10f\n' %velocity)
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# outfile.close()
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# print("Wrote velocity grid for %d points to file: %s" %(nPoints, outputfile))
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def addCheckerboard(spacing = 10., pertubation = 0.1, inputfile = 'vgrids.in',
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outputfile = 'vgrids_cb.in', ampmethod = 'linear', rect = (None, None)):
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'''
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Add a checkerboard to an existing vgrids.in velocity model.
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:param: spacing, size of the tiles
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type: float
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:param: pertubation, pertubation (default: 0.1 = 10%)
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type: float
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'''
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def _readVgrid(filename):
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def readNumberOfPoints(filename):
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fin = open(filename, 'r')
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vglines = fin.readlines()
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@ -291,6 +204,46 @@ def addCheckerboard(spacing = 10., pertubation = 0.1, inputfile = 'vgrids.in',
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print("Read %d points out of file: %s" %(count - 4, filename))
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return vel
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# Theta, Phi in radians, R in km
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nR, nTheta, nPhi = readNumberOfPoints(filename)
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dR, dThetaRad, dPhiRad = readDelta(filename)
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sR, sThetaRad, sPhiRad = readStartpoints(filename)
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vel = readVelocity(filename)
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dTheta, dPhi = np.rad2deg((dThetaRad, dPhiRad))
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sTheta, sPhi = np.rad2deg((sThetaRad, sPhiRad))
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number = (nR, nTheta, nPhi)
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delta = (dR, dTheta, dPhi)
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start = (sR, sTheta, sPhi)
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return number, delta, start, vel
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def _generateGrids(number, delta, start):
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nR, nTheta, nPhi = number
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dR, dTheta, dPhi = delta
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sR, sTheta, sPhi = start
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eR = sR + (nR - 1) * dR
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ePhi = sPhi + (nPhi - 1) * dPhi
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eTheta = sTheta + (nTheta - 1) * dTheta
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thetaGrid = np.linspace(sTheta, eTheta, num = nTheta)
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phiGrid = np.linspace(sPhi, ePhi, num = nPhi)
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rGrid = np.linspace(sR, eR, num = nR)
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return (thetaGrid, phiGrid, rGrid)
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def addCheckerboard(spacing = 10., pertubation = 0.1, inputfile = 'vgrids.in',
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outputfile = 'vgrids_cb.in', ampmethod = 'linear', rect = (None, None)):
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'''
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Add a checkerboard to an existing vgrids.in velocity model.
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:param: spacing, size of the tiles
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type: float
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:param: pertubation, pertubation (default: 0.1 = 10%)
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type: float
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'''
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def correctSpacing(spacing, delta, disttype = None):
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if spacing > delta:
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spacing_corr = round(spacing / delta) * delta
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@ -320,35 +273,24 @@ def addCheckerboard(spacing = 10., pertubation = 0.1, inputfile = 'vgrids.in',
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else:
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print('ampFunc: Could not amplify cb pattern')
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R = 6371. # earth radius
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decm = 0.3 # diagonal elements of the covariance matrix (grid3dg's default value is 0.3)
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outfile = open(outputfile, 'w')
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# Theta, Phi in radians, R in km
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nR, nTheta, nPhi = readNumberOfPoints(inputfile)
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dR, dThetaRad, dPhiRad = readDelta(inputfile)
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sR, sThetaRad, sPhiRad = readStartpoints(inputfile)
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vel = readVelocity(inputfile)
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number, delta, start, vel = _readVgrid(inputfile)
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dTheta, dPhi = np.rad2deg((dThetaRad, dPhiRad))
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sTheta, sPhi = np.rad2deg((dThetaRad, dPhiRad))
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eR = sR + (nR - 1) * dR
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ePhi = sPhi + (nPhi - 1) * dPhi
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eTheta = sTheta + (nTheta - 1) * dTheta
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nR, nTheta, nPhi = number
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dR, dTheta, dPhi = delta
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sR, sTheta, sPhi = start
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thetaGrid, phiGrid, rGrid = _generateGrids(number, delta, start)
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nPoints = nR * nTheta * nPhi
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thetaGrid = np.linspace(sTheta, eTheta, num = nTheta)
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phiGrid = np.linspace(sPhi, ePhi, num = nPhi)
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rGrid = np.linspace(sR, eR, num = nR)
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# write header for velocity grid file (in RADIANS)
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outfile.writelines('%10s %10s \n' %(1, 1))
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outfile.writelines('%10s %10s %10s\n' %(nR, nTheta, nPhi))
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outfile.writelines('%10s %10s %10s\n' %(dR, dThetaRad, dPhiRad))
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outfile.writelines('%10s %10s %10s\n' %(sR, sThetaRad, sPhiRad))
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outfile.writelines('%10s %10s %10s\n' %(dR, np.deg2rad(dTheta), np.deg2rad(dPhi)))
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outfile.writelines('%10s %10s %10s\n' %(sR, np.deg2rad(sTheta), np.deg2rad(sPhi)))
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spacR = correctSpacing(spacing, dR, '[meter], R')
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spacTheta = correctSpacing(_getAngle(spacing), dTheta, '[degree], Theta')
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@ -402,6 +344,85 @@ def addCheckerboard(spacing = 10., pertubation = 0.1, inputfile = 'vgrids.in',
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'Outputfile: %s.'%(inputfile, spacing, pertubation, outputfile))
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outfile.close()
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def addBox(x = (None, None), y = (None, None), z = (None, None),
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boxvelocity = 1.0, inputfile = 'vgrids.in',
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outputfile = 'vgrids_box.in'):
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'''
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Add a box with constant velocity to an existing vgrids.in velocity model.
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:param: x, borders of the box (xleft, xright)
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type: tuple
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:param: y, borders of the box (yleft, yright)
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type: tuple
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:param: z, borders of the box (bot, top)
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type: tuple
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:param: boxvelocity, default: 1.0 km/s
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type: float
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'''
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R = 6371.
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decm = 0.3 # diagonal elements of the covariance matrix (grid3dg's default value is 0.3)
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outfile = open(outputfile, 'w')
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theta1 = _getAngle(y[0])
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theta2 = _getAngle(y[1])
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phi1 = _getAngle(x[0])
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phi2 = _getAngle(x[1])
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r1 = R + z[0]
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r2 = R + z[1]
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print('Adding box to grid with theta = (%s, %s), phi = (%s, %s), '
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'r = (%s, %s), velocity = %s [km/s]'
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%(theta1, theta2, phi1, phi2, r1, r2, boxvelocity))
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number, delta, start, vel = _readVgrid(inputfile)
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nR, nTheta, nPhi = number
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dR, dTheta, dPhi = delta
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sR, sTheta, sPhi = start
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thetaGrid, phiGrid, rGrid = _generateGrids(number, delta, start)
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nPoints = nR * nTheta * nPhi
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# write header for velocity grid file (in RADIANS)
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outfile.writelines('%10s %10s \n' %(1, 1))
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outfile.writelines('%10s %10s %10s\n' %(nR, nTheta, nPhi))
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outfile.writelines('%10s %10s %10s\n' %(dR, np.deg2rad(dTheta), np.deg2rad(dPhi)))
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outfile.writelines('%10s %10s %10s\n' %(sR, np.deg2rad(sTheta), np.deg2rad(sPhi)))
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count = 0
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for radius in rGrid:
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if r1 <= radius <= r2:
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rFlag = 1
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else:
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rFlag = 0
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for theta in thetaGrid:
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if theta1 <= theta <= theta2:
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thetaFlag = 1
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else:
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thetaFlag = 0
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for phi in phiGrid:
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if phi1 <= phi <= phi2:
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phiFlag = 1
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else:
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phiFlag = 0
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velocity = vel[count]
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if rFlag * thetaFlag * phiFlag is not 0:
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velocity = boxvelocity
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outfile.writelines('%10s %10s\n'%(velocity, decm))
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count += 1
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progress = float(count) / float(nPoints) * 100
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_update_progress(progress)
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print('Added box to the grid in file %s. '
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'Outputfile: %s.'%(inputfile, outputfile))
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outfile.close()
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def _update_progress(progress):
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sys.stdout.write("%d%% done \r" % (progress) )
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sys.stdout.flush()
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@ -415,3 +436,9 @@ def _getAngle(distance):
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angle = distance * 180. / (PI * R)
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return angle
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def _getDistance(angle):
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PI = np.pi
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R = 6371.
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distance = angle / 180 * (PI * R)
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return distance
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