#! /usr/bin/env python
#
# Copyright (C) 2010-2017 PyTRiP98 Developers.
#
# This file is part of PyTRiP98.
#
# PyTRiP98 is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 3 of the License, or
# (at your option) any later version.
#
# PyTRiP98 is distributed in the hope that it will be useful,
# but WITHOUT ANY WARRANTY; without even the implied warranty of
# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
# GNU General Public License for more details.
#
# You should have received a copy of the GNU General Public License
# along with PyTRiP98. If not, see <http://www.gnu.org/licenses/>.
#
"""
This script plots the raster scan file for verication of the spot delivery of the ion accelerator.
"""
import sys
import argparse
import logging
import pytrip as pt
[docs]def main(args=sys.argv[1:]):
# there are some cases when this script is run on systems without DISPLAY variable being set
# in such case matplotlib backend has to be explicitly specified
# we do it here and not in the top of the file, as inteleaving imports with code lines is discouraged
import matplotlib
matplotlib.use('Agg')
from pylab import plt, ylabel, grid, xlabel, array
parser = argparse.ArgumentParser()
parser.add_argument("rst_file", help="location of rst file in TRiP98 format", type=str)
parser.add_argument("output_file", help="location of PNG file to save", type=str)
parser.add_argument("-s", "--submachine", help="Select submachine to plot.", type=int, default=1)
parser.add_argument("-f", "--factor", help="Factor for scaling the blobs. Default is 1000.", type=int, default=1000)
parser.add_argument("-v", "--verbosity", action='count', help="increase output verbosity", default=0)
parser.add_argument('-V', '--version', action='version', version=pt.__version__)
args = parser.parse_args(args)
file = args.rst_file
sm = args.submachine
fac = args.factor
a = pt.Rst()
a.read(file)
# convert data in submachine to a nice array
b = a.machines[sm]
x = []
y = []
z = []
for _x, _y, _z in b.raster_points:
x.append(_x)
y.append(_y)
z.append(_z)
title = "Submachine: {:d} / {:d} - Energy: {:.3f} MeV/u".format(sm, len(a.machines), b.energy)
print(title)
cc = array(z)
cc = cc / cc.max() * fac
fig = plt.figure()
ax = fig.add_subplot(111)
ax.scatter(x, y, c=cc, s=cc, alpha=0.75)
ylabel("mm")
xlabel("mm")
grid(True)
plt.title(title)
plt.savefig(args.output_file)
plt.close()
if __name__ == '__main__':
logging.basicConfig()
sys.exit(main(sys.argv[1:]))