def runner(parser, options, args):
if options.task == 'scan':
from scanner import Scanner
scan = Scanner(options)
if options.flyback is None:
flyback_range = get_range(options.flyback_range)
else:
flyback_range = [options.flyback]
scan_speed_range = [options.scan_speed]
title = scan.title()
filename = 'pos_dict_%s.pickle' % (title)
pos_dict_cache = Cache(filename).load()
pos_dict = pos_dict_cache.data
if 0:
# scan
for scan_speed in scan_speed_range:
if scan_speed not in pos_dict:
pos_dict[scan_speed] = set([])
elif isinstance(pos_dict[scan_speed], list):
pos_dict[scan_speed] = set(pos_dict[scan_speed])
stop = False
for flyback in flyback_range:
scan.create_tasks()
scan.setup(scan_speed, flyback)
try:
scan.iterate()
except RuntimeError, msg:
print 'Scanning failed with runtime error: %s' % (msg)
stop = True
scan.free_tasks()
if stop:
break
data = (flyback,
scan.mirror.line_average(scan.xa_error).std() *
1e6)
if data not in pos_dict[scan_speed]:
pos_dict[scan_speed].add(data)
pos_dict_cache.dump()
#plt = scan.show()
#plt.draw()
#plt.show()
pos_dict_cache.dump()
import matplotlib.pyplot as plt
fig = plt.figure(figsize=(12, 12))
def on_keypressed(event, plt=plt, fig=fig):
key = event.key
if key == 'q':
plt.close(fig)
if key == 'x':
plt.close(fig)
sys.exit(0)
fig.canvas.mpl_connect('key_press_event', on_keypressed)
legends = []
scan_speed_list = sorted(pos_dict.keys())
for scan_speed in scan_speed_list:
flyback_data = pos_dict[scan_speed]
legends.append('%.3f m/s' % (scan_speed))
flyback, data = zip(*flyback_data)
plt.semilogy(flyback, data, 'x')
plt.title('Scan speed - flyback ratio curves: %s' % (title))
plt.xlabel('flyback ratio')
plt.ylabel('position resolution, um')
plt.legend(legends)
plt.show()
return
def runner (parser, options, args):
if options.task=='scan':
from scanner import Scanner
scan = Scanner(options)
if options.flyback is None:
flyback_range = get_range(options.flyback_range)
else:
flyback_range = [options.flyback]
scan_speed_range = [options.scan_speed]
title = scan.title ()
filename = 'pos_dict_%s.pickle' % (title)
pos_dict_cache = Cache(filename).load()
pos_dict = pos_dict_cache.data
if 0:
# scan
for scan_speed in scan_speed_range:
if scan_speed not in pos_dict:
pos_dict[scan_speed] = set([])
elif isinstance (pos_dict[scan_speed], list):
pos_dict[scan_speed] = set(pos_dict[scan_speed])
stop = False
for flyback in flyback_range:
scan.create_tasks()
scan.setup (scan_speed, flyback)
try:
scan.iterate()
except RuntimeError, msg:
print 'Scanning failed with runtime error: %s' % (msg)
stop = True
scan.free_tasks()
if stop:
break
data = (flyback, scan.mirror.line_average(scan.xa_error).std()*1e6)
if data not in pos_dict[scan_speed]:
pos_dict[scan_speed].add(data)
pos_dict_cache.dump()
#plt = scan.show()
#plt.draw()
#plt.show()
pos_dict_cache.dump()
import matplotlib.pyplot as plt
fig = plt.figure(figsize=(12,12))
def on_keypressed(event, plt=plt, fig=fig):
key = event.key
if key=='q':
plt.close(fig)
if key=='x':
plt.close(fig)
sys.exit(0)
fig.canvas.mpl_connect('key_press_event', on_keypressed)
legends = []
scan_speed_list = sorted(pos_dict.keys ())
for scan_speed in scan_speed_list:
flyback_data = pos_dict[scan_speed]
legends.append ('%.3f m/s' % (scan_speed))
flyback, data = zip (*flyback_data)
plt.semilogy(flyback,data, 'x')
plt.title('Scan speed - flyback ratio curves: %s' % (title))
plt.xlabel('flyback ratio')
plt.ylabel('position resolution, um')
plt.legend(legends)
plt.show()
return
(numpy.log(max_scan_speed / min_scan_speed)))
pixel_time_range = min_pixel_time + numpy.arange(
nof_pixel_times, dtype=float) / (nof_pixel_times - 1) * (
max_pixel_time - min_pixel_time)
alpha = options.orientation_angle
roi = (options.roi_x0, options.roi_y0, options.roi_x1, options.roi_y1)
ll = xya_pq(roi[0], roi[1])
ur = xya_pq(roi[2], roi[3])
scan_area_width = (ur[0] - ll[0]) * 1e6 # um
scan_area_height = (ur[1] - ll[1]) * 1e6 # um
M = options.image_height
data_scan_speed = []
data_flyback_ratio = []
cache = Cache()
cache.load()
flystart_ratio = 0.5
target_ioffset_std = 1.0
error_margin = 0.1
for pixel_time in pixel_time_range:
for scan_speed in scan_speed_log_range:
pixel_size_x = scan_speed * pixel_time # um
N = max(1, int(scan_area_width / pixel_size_x))
K = N
error_must_increase = None
last_error = None
nof_pixel_times = 2
scan_speed_range = min_scan_speed + numpy.arange(nof_scan_speeds, dtype=float)/(nof_scan_speeds-1) * (max_scan_speed - min_scan_speed)
scan_speed_log_range = numpy.exp(numpy.log(min_scan_speed) + numpy.arange(nof_scan_speeds, dtype=float)/(nof_scan_speeds-1) * (numpy.log(max_scan_speed/min_scan_speed)))
pixel_time_range = min_pixel_time + numpy.arange(nof_pixel_times, dtype=float)/(nof_pixel_times-1) * (max_pixel_time - min_pixel_time)
alpha = options.orientation_angle
roi = (options.roi_x0, options.roi_y0, options.roi_x1, options.roi_y1)
ll = xya_pq(roi[0], roi[1])
ur = xya_pq(roi[2], roi[3])
scan_area_width = (ur[0] - ll[0]) * 1e6 # um
scan_area_height = (ur[1] - ll[1]) * 1e6 # um
M = options.image_height
data_scan_speed = []
data_flyback_ratio = []
cache = Cache()
cache.load()
flystart_ratio = 0.5
target_ioffset_std = 1.0
error_margin = 0.1
for pixel_time in pixel_time_range:
for scan_speed in scan_speed_log_range:
pixel_size_x = scan_speed * pixel_time # um
N = max(1, int(scan_area_width / pixel_size_x))
K = N
error_must_increase = None
last_error = None
