def init_globals():
global dx, dy, rcyl, phant, globals_inited_p
if not globals_inited_p:
phant = CylinderPhantom()
# FIXME
phant.read('cylinder_skin_10MV_140deg.egsphant')
dx = phant.dx
dy = phant.dy
rcyl = phant.radius
globals_inited_p = True
def init_globals():
global dx, dy, rcyl, phant, globals_inited_p
if not globals_inited_p:
phant = CylinderPhantom()
# FIXME
phant.read('cylinder_skin_10MV_140deg.egsphant')
dx = phant.dx
dy = phant.dy
rcyl = phant.radius
globals_inited_p = True
def __init__(self, dosefilename):
global dx, dy, rcyl, phant, globals_inited_p
debug_print("dosefilename: %s" % dosefilename)
self.dosefilename = dosefilename
self.phantfilename = self.dosefilename.split('.')[0] + '.egsphant'
# square of interest has sides of length 2 * d2
self.d2 = 0.1 # cm
debug_print("ALOHA")
self.dose_dist = egsnrc.MCDose.MCDose(self.dosefilename)
debug_print("FOOBAR")
self.phant = CylinderPhantom()
debug_print("GADZOOKS")
self.phant.read(self.phantfilename)
debug_print("CUBAAN")
# globals
dx = self.phant.dx
dy = self.phant.dy
rcyl = self.phant.radius
def __init__(self, dosefilename):
global dx, dy, rcyl, phant, globals_inited_p
debug_print("dosefilename: %s" % dosefilename)
self.dosefilename = dosefilename
self.phantfilename = self.dosefilename.split('.')[0] + '.egsphant'
# square of interest has sides of length 2 * d2
self.d2 = 0.1 # cm
debug_print("ALOHA")
self.dose_dist = egsnrc.MCDose.MCDose(self.dosefilename)
debug_print("FOOBAR")
self.phant = CylinderPhantom()
debug_print("GADZOOKS")
self.phant.read(self.phantfilename)
debug_print("CUBAAN")
# globals
dx = self.phant.dx
dy = self.phant.dy
rcyl = self.phant.radius
class CylinderDose:
def __init__(self, dosefilename):
global dx, dy, rcyl, phant, globals_inited_p
debug_print("dosefilename: %s" % dosefilename)
self.dosefilename = dosefilename
self.phantfilename = self.dosefilename.split('.')[0] + '.egsphant'
# square of interest has sides of length 2 * d2
self.d2 = 0.1 # cm
debug_print("ALOHA")
self.dose_dist = egsnrc.MCDose.MCDose(self.dosefilename)
debug_print("FOOBAR")
self.phant = CylinderPhantom()
debug_print("GADZOOKS")
self.phant.read(self.phantfilename)
debug_print("CUBAAN")
# globals
dx = self.phant.dx
dy = self.phant.dy
rcyl = self.phant.radius
def get_dose(self, angle):
debug_print("angle: %f" % angle)
angle *= math.pi / 180.
# compute the x-y coordinates of the voxels (some extent in z)
r0 = rcyl - self.d2 # radial distance to wanted voxel
x0 = r0 * math.cos(angle)
y0 = -r0 * math.sin(angle)
# compute the x-y index of the voxel
(i0, j0) = indices(x0, y0)
debug_print('angle = %f rad = %f deg' %
(angle, angle / math.pi * 180.))
debug_print('r0 = %f' % r0)
debug_print('x0 = %f' % x0)
debug_print('y0 = %f' % y0)
debug_print('i0 = %d' % i0)
debug_print('j0 = %d' % j0)
# q and r are as in the notes
q = math.fabs(self.d2 * (math.cos(angle) + math.sin(angle)))
r = math.fabs(self.d2 * (math.cos(angle) - math.sin(angle)))
# the four corners of the square
x1 = x0 + q
y1 = y0 + r
x2 = x0 - r
y2 = y0 + q
x3 = x0 - q
y3 = y0 - r
x4 = x0 + r
y4 = y0 - q
(i1, j1) = indices(x1, y1)
(i2, j2) = indices(x2, y2)
(i3, j3) = indices(x3, y3)
(i4, j4) = indices(x4, y4)
# centers of the 4 edges
(xA, yA, xB, yB, xC, yC, xD,
yD) = square_edge_centers(x0, y0, self.d2, angle)
debug_print(
"In main(): (xA, yA), (xB, yB), (xC, yC), (xD, yD) = (%f, %f), (%f, %f), (%f, %f), (%f, %f)"
% (xA, yA, xB, yB, xC, yC, xD, yD))
# find the z-indices
kstart = int(
(self.phant.phantom.zedges[-1] - self.phant.phantom.zedges[0]) /
(2 * self.phant.dz)) - 2
debug_print('len(zedge) = %d' % len(self.phant.phantom.zedges))
debug_print('zedge[0] = %f' % self.phant.phantom.zedges[0])
debug_print('zedge[-1] = %f' % self.phant.phantom.zedges[-1])
debug_print('kstart = %d' % kstart)
voxel_count = 0
avg_dose = 0.
mean_sigma = 0.
for k in range(kstart, kstart + 4):
for j in range(len(self.dose_dist.yedges) - 1):
for i in range(len(self.dose_dist.xedges) - 1):
#debug_print("(k,j,i) = (%d,%d,%d)" % (k,j,i))
if voxel_in_phantom_and_square_p(i, j, k, self.phant,
self.d2, xA, yA, xB, yB,
xC, yC, xD, yD):
debug_print("aha! dose = %.6e; error = %2.2f%%" %
(self.dose_dist.dose[k, j, i],
self.dose_dist.error[k, j, i] * 100.))
voxel_count += 1
avg_dose += self.dose_dist.dose[k, j, i]
mean_sigma += self.dose_dist.error[k, j, i]
if voxel_count == 0:
print >> sys.stderr, "Error: No matching voxels!"
sys.exit(3)
avg_dose /= voxel_count
mean_sigma /= voxel_count
debug_print("voxel_count = %d" % voxel_count)
print self.dosefilename.split('.')[0]
print " angle = %.2f; avg_dose = %.6e; mean_sigma = %.2f%%" % (
angle * 180. / math.pi, avg_dose, mean_sigma * 100.)
def main(dosefilename, angle):
# extracts the dose from a cylinder phantom, from a dose file
# 'dosefilename' at an angle 'angle'
global dx, dy, rcyl, phant, globals_inited_p
#init_globals()
phantfilename = dosefilename.split('.')[0] + '.egsphant'
# square of interest has sides of length 2 * d2
d2 = 0.1
# convert to radians
angle = angle * math.pi / 180.
dose_dist = egsnrc.MCDose.MCDose(dosefilename)
phant = CylinderPhantom()
phant.read(phantfilename)
dx = phant.dx
dy = phant.dy
rcyl = phant.radius
debug_print('main: rcyl = %f\n' % rcyl)
# compute the x-y coordinates of the voxels (some extent in z)
r0 = rcyl - d2 # radial distance to wanted voxel
x0 = r0 * math.cos(angle)
y0 = -r0 * math.sin(angle)
# compute the x-y index of the voxel
(i0, j0) = indices(x0, y0)
debug_print('angle = %f rad = %f deg' % (angle, angle / math.pi * 180.))
debug_print('r0 = %f' % r0)
debug_print('x0 = %f' % x0)
debug_print('y0 = %f' % y0)
debug_print('i0 = %d' % i0)
debug_print('j0 = %d' % j0)
# q and r are as in the notes
q = math.fabs(d2 * (math.cos(angle) + math.sin(angle)))
r = math.fabs(d2 * (math.cos(angle) - math.sin(angle)))
# the four corners of the square
x1 = x0 + q
y1 = y0 + r
x2 = x0 - r
y2 = y0 + q
x3 = x0 - q
y3 = y0 - r
x4 = x0 + r
y4 = y0 - q
(i1, j1) = indices(x1, y1)
(i2, j2) = indices(x2, y2)
(i3, j3) = indices(x3, y3)
(i4, j4) = indices(x4, y4)
# centers of the 4 edges
(xA, yA, xB, yB, xC, yC, xD, yD) = square_edge_centers(x0, y0, d2, angle)
debug_print(
"In main(): (xA, yA), (xB, yB), (xC, yC), (xD, yD) = (%f, %f), (%f, %f), (%f, %f), (%f, %f)"
% (xA, yA, xB, yB, xC, yC, xD, yD))
# find the z-indices
kstart = int((phant.phantom.zedges[-1] - phant.phantom.zedges[0]) /
(2 * phant.dz)) - 2
debug_print('len(zedge) = %d' % len(phant.phantom.zedges))
debug_print('zedge[0] = %f' % phant.phantom.zedges[0])
debug_print('zedge[-1] = %f' % phant.phantom.zedges[-1])
debug_print('kstart = %d' % kstart)
voxel_count = 0
avg_dose = 0.
rms_error = 0.
for k in range(kstart, kstart + 4):
for j in range(len(dose_dist.yedges) - 1):
for i in range(len(dose_dist.xedges) - 1):
#debug_print("(k,j,i) = (%d,%d,%d)" % (k,j,i))
if voxel_in_phantom_and_square_p(i, j, k, phant, d2, xA, yA,
xB, yB, xC, yC, xD, yD):
debug_print("aha! dose = %.6e; error = %2.2f%%" %
(dose_dist.dose[k, j, i],
dose_dist.error[k, j, i] * 100.))
voxel_count += 1
avg_dose += dose_dist.dose[k, j, i]
rms_error += dose_dist.error[k, j,
i] * dose_dist.error[k, j, i]
if voxel_count == 0:
print >> sys.stderr, "Error: No matching voxels!"
sys.exit(3)
avg_dose = avg_dose / voxel_count
rms_error = math.sqrt(rms_error / voxel_count)
debug_print("voxel_count = %d" % voxel_count)
print "avg_dose = %.6e; rms error = %.2f%%" % (avg_dose, rms_error * 100.)
class CylinderDose:
def __init__(self, dosefilename):
global dx, dy, rcyl, phant, globals_inited_p
debug_print("dosefilename: %s" % dosefilename)
self.dosefilename = dosefilename
self.phantfilename = self.dosefilename.split('.')[0] + '.egsphant'
# square of interest has sides of length 2 * d2
self.d2 = 0.1 # cm
debug_print("ALOHA")
self.dose_dist = egsnrc.MCDose.MCDose(self.dosefilename)
debug_print("FOOBAR")
self.phant = CylinderPhantom()
debug_print("GADZOOKS")
self.phant.read(self.phantfilename)
debug_print("CUBAAN")
# globals
dx = self.phant.dx
dy = self.phant.dy
rcyl = self.phant.radius
def get_dose(self, angle):
debug_print("angle: %f" % angle)
angle *= math.pi / 180.
# compute the x-y coordinates of the voxels (some extent in z)
r0 = rcyl - self.d2 # radial distance to wanted voxel
x0 = r0 * math.cos(angle)
y0 = -r0 * math.sin(angle)
# compute the x-y index of the voxel
(i0, j0) = indices(x0, y0)
debug_print('angle = %f rad = %f deg' % (angle, angle / math.pi * 180.))
debug_print('r0 = %f' % r0)
debug_print('x0 = %f' % x0)
debug_print('y0 = %f' % y0)
debug_print('i0 = %d' % i0)
debug_print('j0 = %d' % j0)
# q and r are as in the notes
q = math.fabs(self.d2 * (math.cos(angle) + math.sin(angle)))
r = math.fabs(self.d2 * (math.cos(angle) - math.sin(angle)))
# the four corners of the square
x1 = x0 + q
y1 = y0 + r
x2 = x0 - r
y2 = y0 + q
x3 = x0 - q
y3 = y0 - r
x4 = x0 + r
y4 = y0 - q
(i1, j1) = indices(x1, y1)
(i2, j2) = indices(x2, y2)
(i3, j3) = indices(x3, y3)
(i4, j4) = indices(x4, y4)
# centers of the 4 edges
(xA, yA, xB, yB, xC, yC, xD, yD) = square_edge_centers(x0, y0, self.d2, angle)
debug_print("In main(): (xA, yA), (xB, yB), (xC, yC), (xD, yD) = (%f, %f), (%f, %f), (%f, %f), (%f, %f)" % (xA, yA, xB, yB, xC, yC, xD, yD))
# find the z-indices
kstart = int((self.phant.phantom.zedges[-1] - self.phant.phantom.zedges[0]) / (2 * self.phant.dz)) - 2
debug_print('len(zedge) = %d' % len(self.phant.phantom.zedges))
debug_print('zedge[0] = %f' % self.phant.phantom.zedges[0])
debug_print('zedge[-1] = %f' % self.phant.phantom.zedges[-1])
debug_print('kstart = %d' % kstart)
voxel_count = 0
avg_dose = 0.
mean_sigma = 0.
for k in range(kstart, kstart + 4):
for j in range(len(self.dose_dist.yedges) - 1):
for i in range(len(self.dose_dist.xedges) - 1):
#debug_print("(k,j,i) = (%d,%d,%d)" % (k,j,i))
if voxel_in_phantom_and_square_p(i,j,k, self.phant, self.d2,xA, yA, xB, yB, xC, yC, xD, yD):
debug_print("aha! dose = %.6e; error = %2.2f%%" % (self.dose_dist.dose[k,j,i], self.dose_dist.error[k,j,i] * 100.))
voxel_count += 1
avg_dose += self.dose_dist.dose[k,j,i]
mean_sigma += self.dose_dist.error[k,j,i]
if voxel_count == 0:
print >> sys.stderr, "Error: No matching voxels!"
sys.exit(3)
avg_dose /= voxel_count
mean_sigma /= voxel_count
debug_print("voxel_count = %d" % voxel_count)
print self.dosefilename.split('.')[0]
print " angle = %.2f; avg_dose = %.6e; mean_sigma = %.2f%%" % (angle*180./math.pi, avg_dose, mean_sigma * 100.)
def main(dosefilename, angle):
# extracts the dose from a cylinder phantom, from a dose file
# 'dosefilename' at an angle 'angle'
global dx, dy, rcyl, phant, globals_inited_p
#init_globals()
phantfilename = dosefilename.split('.')[0] + '.egsphant'
# square of interest has sides of length 2 * d2
d2 = 0.1
# convert to radians
angle = angle * math.pi / 180.
dose_dist = egsnrc.MCDose.MCDose(dosefilename)
phant = CylinderPhantom()
phant.read(phantfilename)
dx = phant.dx
dy = phant.dy
rcyl = phant.radius
debug_print('main: rcyl = %f\n' % rcyl)
# compute the x-y coordinates of the voxels (some extent in z)
r0 = rcyl - d2 # radial distance to wanted voxel
x0 = r0 * math.cos(angle)
y0 = -r0 * math.sin(angle)
# compute the x-y index of the voxel
(i0, j0) = indices(x0, y0)
debug_print('angle = %f rad = %f deg' % (angle, angle / math.pi * 180.))
debug_print('r0 = %f' % r0)
debug_print('x0 = %f' % x0)
debug_print('y0 = %f' % y0)
debug_print('i0 = %d' % i0)
debug_print('j0 = %d' % j0)
# q and r are as in the notes
q = math.fabs(d2 * (math.cos(angle) + math.sin(angle)))
r = math.fabs(d2 * (math.cos(angle) - math.sin(angle)))
# the four corners of the square
x1 = x0 + q
y1 = y0 + r
x2 = x0 - r
y2 = y0 + q
x3 = x0 - q
y3 = y0 - r
x4 = x0 + r
y4 = y0 - q
(i1, j1) = indices(x1, y1)
(i2, j2) = indices(x2, y2)
(i3, j3) = indices(x3, y3)
(i4, j4) = indices(x4, y4)
# centers of the 4 edges
(xA, yA, xB, yB, xC, yC, xD, yD) = square_edge_centers(x0, y0, d2, angle)
debug_print("In main(): (xA, yA), (xB, yB), (xC, yC), (xD, yD) = (%f, %f), (%f, %f), (%f, %f), (%f, %f)" % (xA, yA, xB, yB, xC, yC, xD, yD))
# find the z-indices
kstart = int((phant.phantom.zedges[-1] - phant.phantom.zedges[0]) / (2 * phant.dz)) - 2
debug_print('len(zedge) = %d' % len(phant.phantom.zedges))
debug_print('zedge[0] = %f' % phant.phantom.zedges[0])
debug_print('zedge[-1] = %f' % phant.phantom.zedges[-1])
debug_print('kstart = %d' % kstart)
voxel_count = 0
avg_dose = 0.
rms_error = 0.
for k in range(kstart, kstart + 4):
for j in range(len(dose_dist.yedges) - 1):
for i in range(len(dose_dist.xedges) - 1):
#debug_print("(k,j,i) = (%d,%d,%d)" % (k,j,i))
if voxel_in_phantom_and_square_p(i,j,k,phant,d2,xA, yA, xB, yB, xC, yC, xD, yD):
debug_print("aha! dose = %.6e; error = %2.2f%%" % (dose_dist.dose[k,j,i], dose_dist.error[k,j,i] * 100.))
voxel_count += 1
avg_dose += dose_dist.dose[k,j,i]
rms_error += dose_dist.error[k,j,i]*dose_dist.error[k,j,i]
if voxel_count == 0:
print >> sys.stderr, "Error: No matching voxels!"
sys.exit(3)
avg_dose = avg_dose/voxel_count
rms_error = math.sqrt(rms_error/voxel_count)
debug_print("voxel_count = %d" % voxel_count)
print "avg_dose = %.6e; rms error = %.2f%%" % (avg_dose, rms_error * 100.)
#!/usr/bin/env python2.4
import sys
import math
from CylinderPhantom import *
if __name__ == '__main__':
phant = CylinderPhantom(sys.argv[1])
phant.build()
