def plot_results(self, beam_out, progressBarValue=80):
if not self.view_type == 2:
if ShadowCongruence.checkEmptyBeam(beam_out):
if ShadowCongruence.checkGoodBeam(beam_out):
self.view_type_combo.setEnabled(False)
ShadowPlot.set_conversion_active(self.getConversionActive())
if self.isFootprintEnabled():
beam_foot_print = ShadowBeam()
if beam_out._oe_number < 10:
beam_foot_print.loadFromFile(file_name="mirr.0" + str(beam_out._oe_number))
else:
beam_foot_print.loadFromFile(file_name="mirr." + str(beam_out._oe_number))
variables = self.getVariablestoPlot()
titles = self.getTitles()
xtitles = self.getXTitles()
ytitles = self.getYTitles()
xums = self.getXUM()
yums = self.getYUM()
try:
if self.view_type == 1:
self.plot_xy_fast(beam_out, progressBarValue + 4, variables[0][0], variables[0][1], plot_canvas_index=0, title=titles[0], xtitle=xtitles[0], ytitle=ytitles[0])
self.plot_xy_fast(beam_out, progressBarValue + 8, variables[1][0], variables[1][1], plot_canvas_index=1, title=titles[1], xtitle=xtitles[1], ytitle=ytitles[1])
self.plot_xy_fast(beam_out, progressBarValue + 12, variables[2][0], variables[2][1], plot_canvas_index=2, title=titles[2], xtitle=xtitles[2], ytitle=ytitles[2])
self.plot_xy_fast(beam_out, progressBarValue + 16, variables[3][0], variables[3][1], plot_canvas_index=3, title=titles[3], xtitle=xtitles[3], ytitle=ytitles[3])
self.plot_histo_fast(beam_out, progressBarValue + 20, variables[4], plot_canvas_index=4, title=titles[4], xtitle=xtitles[4], ytitle=ytitles[4])
if self.isFootprintEnabled():
self.plot_xy_fast(beam_foot_print, progressBarValue + 20, 2, 1, plot_canvas_index=5, title="Footprint", xtitle="Y [" + self.workspace_units_label +"]", ytitle="X [" + self.workspace_units_label +"]", is_footprint=True)
elif self.view_type == 0:
self.plot_xy(beam_out, progressBarValue + 4, variables[0][0], variables[0][1], plot_canvas_index=0, title=titles[0], xtitle=xtitles[0], ytitle=ytitles[0], xum=xums[0], yum=yums[0])
self.plot_xy(beam_out, progressBarValue + 8, variables[1][0], variables[1][1], plot_canvas_index=1, title=titles[1], xtitle=xtitles[1], ytitle=ytitles[1], xum=xums[1], yum=yums[1])
self.plot_xy(beam_out, progressBarValue + 12, variables[2][0], variables[2][1], plot_canvas_index=2, title=titles[2], xtitle=xtitles[2], ytitle=ytitles[2], xum=xums[2], yum=yums[2])
self.plot_xy(beam_out, progressBarValue + 16, variables[3][0], variables[3][1], plot_canvas_index=3, title=titles[3], xtitle=xtitles[3], ytitle=ytitles[3], xum=xums[3], yum=yums[3])
self.plot_histo(beam_out, progressBarValue + 20, variables[4], plot_canvas_index=4, title=titles[4], xtitle=xtitles[4], ytitle=ytitles[4], xum=xums[4] )
if self.isFootprintEnabled():
self.plot_xy(beam_foot_print, progressBarValue + 20, 2, 1, plot_canvas_index=5, title="Footprint", xtitle="Y [" + self.workspace_units_label +"]", ytitle="X [" + self.workspace_units_label +"]",
xum=("Y [" + self.workspace_units_label +"]"), yum=("X [" + self.workspace_units_label +"]"), is_footprint=True)
except Exception:
self.view_type_combo.setEnabled(True)
raise Exception("Data not plottable: No good rays or bad content")
self.view_type_combo.setEnabled(True)
else:
raise Exception("Beam with no good rays")
else:
raise Exception("Empty Beam")
self.plotted_beam = beam_out
def clearResults(self, interactive=True):
if not interactive: proceed = True
else: proceed = ConfirmDialog.confirmed(parent=self)
if proceed:
self.input_beam = ShadowBeam()
self.cumulated_ticket = None
self.plotted_ticket = None
self.autosave_prog_id = 0
if not self.autosave_file is None:
self.autosave_file.close()
self.autosave_file = None
self.plot_canvas.clear()
def clearResults(self):
if ConfirmDialog.confirmed(parent=self):
self.input_beam = ShadowBeam()
self.plot_canvas.clear()
return True
else:
return False
def retrace(self):
try:
if not self.input_beam is None:
output_beam = self.input_beam.duplicate(history=True)
empty_element = ShadowOpticalElement.create_empty_oe()
empty_element._oe.DUMMY = 1.0 # self.workspace_units_to_cm
empty_element._oe.T_SOURCE = 0.0
empty_element._oe.T_IMAGE = self.retrace_distance
empty_element._oe.T_INCIDENCE = 0.0
empty_element._oe.T_REFLECTION = 180.0
empty_element._oe.ALPHA = 0.0
empty_element._oe.FWRITE = 3
empty_element._oe.F_ANGLE = 0
output_beam = ShadowBeam.traceFromOE(output_beam, empty_element, history=True)
self.setStatusMessage("Plotting Results")
self.plot_results(output_beam)
self.setStatusMessage("")
self.progressBarFinished()
self.send("Beam", output_beam)
self.send("Trigger", TriggerIn(new_object=True))
except Exception as exception:
QMessageBox.critical(self, "Error", str(exception), QMessageBox.Ok)
if self.IS_DEVELOP: raise exception
def completeOperations(self, shadow_oe=None):
self.setStatusMessage("Running SHADOW")
if self.trace_shadow:
grabber = TTYGrabber()
grabber.start()
self.progressBarSet(50)
###########################################
# TODO: TO BE ADDED JUST IN CASE OF BROKEN
# ENVIRONMENT: MUST BE FOUND A PROPER WAY
# TO TEST SHADOW
self.fixWeirdShadowBug()
###########################################
beam_out = ShadowBeam.traceFromOE(self.input_beam, shadow_oe)
self.adjust_divergence_and_intensity(beam_out)
if self.trace_shadow:
grabber.stop()
for row in grabber.ttyData:
self.writeStdOut(row)
self.setStatusMessage("Plotting Results")
self.plot_results(beam_out)
self.setStatusMessage("")
self.send("Beam", beam_out)
self.send("Trigger", ShadowTriggerIn(new_beam=True))
def runShadowSource(self):
self.setStatusMessage("")
self.progressBarInit()
try:
self.checkFields()
###########################################
# TODO: TO BE ADDED JUST IN CASE OF BROKEN
# ENVIRONMENT: MUST BE FOUND A PROPER WAY
# TO TEST SHADOW
self.fixWeirdShadowBug()
###########################################
shadow_src = ShadowSource.create_bm_src()
self.populateFields(shadow_src)
self.progressBarSet(10)
self.setStatusMessage("Running SHADOW")
sys.stdout = EmittingStream(textWritten=self.writeStdOut)
if self.trace_shadow:
grabber = TTYGrabber()
grabber.start()
self.progressBarSet(50)
write_begin_file, write_start_file, write_end_file = self.get_write_file_options(
)
beam_out = ShadowBeam.traceFromSource(
shadow_src,
write_begin_file=write_begin_file,
write_start_file=write_start_file,
write_end_file=write_end_file,
widget_class_name=self.__class__.name)
if self.trace_shadow:
grabber.stop()
for row in grabber.ttyData:
self.writeStdOut(row)
self.setStatusMessage("Plotting Results")
self.progressBarSet(80)
self.plot_results(beam_out)
self.setStatusMessage("")
self.send("Beam", beam_out)
except Exception as exception:
QtWidgets.QMessageBox.critical(self, "Error", str(exception),
QtWidgets.QMessageBox.Ok)
if self.IS_DEVELOP: raise exception
self.progressBarFinished()
def merge_beams(self):
merged_beam = None
if self.use_weights == 1:
total_intensity = 0.0
for index in range(1, 11):
current_beam = getattr(self, "input_beam" + str(index))
if not current_beam is None:
total_intensity += current_beam._beam.rays[:, 6]**2 + current_beam._beam.rays[:, 7]**2 + current_beam._beam.rays[:, 8]**2 + \
current_beam._beam.rays[:, 15]**2 + current_beam._beam.rays[:, 16]**2 + current_beam._beam.rays[:, 17]**2
for index in range(1, 11):
current_beam = getattr(self, "input_beam" + str(index))
if not current_beam is None:
current_beam = current_beam.duplicate()
if self.use_weights == 1:
current_intensity = current_beam._beam.rays[:, 6]**2 + current_beam._beam.rays[:, 7]**2 + current_beam._beam.rays[:, 8]**2 + \
current_beam._beam.rays[:, 15]**2 + current_beam._beam.rays[:, 16]**2 + current_beam._beam.rays[:, 17]**2
current_weight = current_intensity/total_intensity
new_weight = getattr(self, "weight_input_beam" + str(index))
ratio = new_weight/current_weight
current_beam._beam.rays[:, 6] *= numpy.sqrt(ratio)
current_beam._beam.rays[:, 7] *= numpy.sqrt(ratio)
current_beam._beam.rays[:, 8] *= numpy.sqrt(ratio)
current_beam._beam.rays[:, 15] *= numpy.sqrt(ratio)
current_beam._beam.rays[:, 16] *= numpy.sqrt(ratio)
current_beam._beam.rays[:, 17] *= numpy.sqrt(ratio)
if merged_beam is None: merged_beam = current_beam
else: merged_beam = ShadowBeam.mergeBeams(merged_beam, current_beam)
self.send("Beam", merged_beam)
def completeOperations(self, shadow_oe=None):
self.setStatusMessage("Running SHADOW")
if self.trace_shadow:
grabber = TTYGrabber()
grabber.start()
self.progressBarSet(50)
###########################################
# TODO: TO BE ADDED JUST IN CASE OF BROKEN
# ENVIRONMENT: MUST BE FOUND A PROPER WAY
# TO TEST SHADOW
self.fixWeirdShadowBug()
###########################################
beam_out = ShadowBeam.traceFromOE(self.input_beam, shadow_oe)
self.adjust_divergence_and_intensity(beam_out)
if self.trace_shadow:
grabber.stop()
for row in grabber.ttyData:
self.writeStdOut(row)
self.setStatusMessage("Plotting Results")
self.plot_results(beam_out)
self.setStatusMessage("")
self.send("Beam", beam_out)
self.send("Trigger", ShadowTriggerIn(new_beam=True))
def setBeam(self, beam):
if ShadowGui.checkEmptyBeam(beam):
proceed = True
if not ShadowGui.checkGoodBeam(beam):
if not ConfirmDialog.confirmed(parent=self, message="Beam contains bad values, skip it?"):
proceed = False
if proceed:
go = numpy.where(beam.beam.rays[:, 9] == 1)
self.current_number_of_rays = self.current_number_of_rays + len(beam.beam.rays[go])
if self.current_number_of_rays <= self.number_of_accumulated_rays:
if self.keep_go_rays == 1:
beam.beam.rays = copy.deepcopy(beam.beam.rays[go])
if not self.input_beam is None:
self.input_beam = ShadowBeam.mergeBeams(self.input_beam, beam)
else:
self.input_beam = beam
self.send("Trigger", ShadowTriggerIn(new_beam=True))
else:
if self.is_automatic_run:
self.sendSignal()
self.current_number_of_rays = 0
self.input_beam = None
else:
QtGui.QMessageBox.critical(self, "QMessageBox.critical()",
"Number of Accumulated Rays reached, please push \'Send Signal\' button",
QtGui.QMessageBox.Ok)
def merge_beams(self):
merged_beam = None
if self.use_weights == 1:
total_intensity = 0.0
for index in range(1, 11):
current_beam = getattr(self, "input_beam" + str(index))
if not current_beam is None:
total_intensity += current_beam._beam.rays[:, 6]**2 + current_beam._beam.rays[:, 7]**2 + current_beam._beam.rays[:, 8]**2 + \
current_beam._beam.rays[:, 15]**2 + current_beam._beam.rays[:, 16]**2 + current_beam._beam.rays[:, 17]**2
for index in range(1, 11):
current_beam = getattr(self, "input_beam" + str(index))
if not current_beam is None:
current_beam = current_beam.duplicate()
if self.use_weights == 1:
current_intensity = current_beam._beam.rays[:, 6]**2 + current_beam._beam.rays[:, 7]**2 + current_beam._beam.rays[:, 8]**2 + \
current_beam._beam.rays[:, 15]**2 + current_beam._beam.rays[:, 16]**2 + current_beam._beam.rays[:, 17]**2
current_weight = current_intensity/total_intensity
new_weight = getattr(self, "weight_input_beam" + str(index))
ratio = new_weight/current_weight
current_beam._beam.rays[:, 6] *= numpy.sqrt(ratio)
current_beam._beam.rays[:, 7] *= numpy.sqrt(ratio)
current_beam._beam.rays[:, 8] *= numpy.sqrt(ratio)
current_beam._beam.rays[:, 15] *= numpy.sqrt(ratio)
current_beam._beam.rays[:, 16] *= numpy.sqrt(ratio)
current_beam._beam.rays[:, 17] *= numpy.sqrt(ratio)
if merged_beam is None: merged_beam = current_beam
else: merged_beam = ShadowBeam.mergeBeams(merged_beam, current_beam)
self.send("Beam", merged_beam)
def replace_spectro_fig(self, rays_to_plot, var_x, factor_x, xrange, title,
color):
try:
beam = ShadowBeam()
beam._beam.rays = rays_to_plot
ticket = beam._beam.histo1(var_x,
nbins=self.number_of_bins,
xrange=xrange,
nolost=self.rays,
ref=self.weight_column_index)
if self.weight_column_index != 0:
self.spectro_plot_canvas.setGraphYLabel(
"Number of rays weighted by " +
ShadowPlot.get_shadow_label(self.weight_column_index))
else:
self.spectro_plot_canvas.setGraphYLabel("Number of Rays")
histogram = ticket['histogram_path']
bins = ticket['bin_path'] * factor_x
self.spectro_plot_canvas.addCurve(bins,
histogram,
title,
symbol='',
color=color,
replace=False) #'+', '^', ','
except Exception as e:
print(e)
raise Exception("Data not plottable: No good rays or bad content")
def convertMapToBeam(self, map):
number_of_rays = len(map)
if number_of_rays == 0: return None
beam_out = ShadowBeam(number_of_rays=number_of_rays)
for index in range(0, number_of_rays):
point = map[index]
ray = beam_out._beam.rays[index]
E_value = numpy.sqrt(point.value * 0.5)
ray[0] = point.x # X
ray[1] = point.y # Y
ray[2] = point.z # Z
ray[3] = 0 # director cos x
ray[4] = 1 # director cos y
ray[5] = 0 # director cos z
ray[6] = 0 # Es_x
ray[7] = E_value # Es_y
ray[8] = 0 # Es_z
ray[9] = 1 # good/lost
ray[10] = 2 * numpy.pi / 1.5e-8
ray[11] = index # ray index
ray[12] = 1 # good only
ray[13] = numpy.pi * 0.5 # Es_phi
ray[14] = numpy.pi * 0.5 # Ep_phi
ray[15] = 0 # Ep_x
ray[16] = E_value # Ep_y
ray[17] = 0 # Ep_z
return beam_out
def setBeam(self, beam):
if ShadowCongruence.checkEmptyBeam(beam):
proceed = True
if not ShadowCongruence.checkGoodBeam(beam):
if not ConfirmDialog.confirmed(
parent=self,
message="Beam contains bad values, skip it?"):
proceed = False
if proceed:
scanned_variable_data = beam.scanned_variable_data
go = numpy.where(beam._beam.rays[:, 9] == 1)
nr_good = len(beam._beam.rays[go])
nr_total = len(beam._beam.rays)
nr_lost = nr_total - nr_good
intensity = beam._beam.histo1(1, nolost=1, ref=23)['intensity']
self.current_number_of_rays += nr_good
self.current_intensity += intensity
self.le_current_intensity.setText("{:10.3f}".format(
self.current_intensity))
self.current_number_of_lost_rays += nr_lost
self.current_number_of_total_rays += nr_total
if (self.kind_of_accumulation == 0 and self.current_number_of_rays <= self.number_of_accumulated_rays) or \
(self.kind_of_accumulation == 1 and self.current_intensity <= self.number_of_accumulated_rays):
if self.keep_go_rays == 1:
beam._beam.rays = copy.deepcopy(beam._beam.rays[go])
if not self.input_beam is None:
self.input_beam = ShadowBeam.mergeBeams(
self.input_beam, beam)
else:
beam._beam.rays[:, 11] = numpy.arange(
1,
len(beam._beam.rays) + 1, 1) # ray_index
self.input_beam = beam
self.input_beam.setScanningData(scanned_variable_data)
self.send("Trigger", TriggerIn(new_object=True))
else:
if self.is_automatic_run:
self.sendSignal()
self.current_number_of_rays = 0
self.current_intensity = 0.0
self.current_number_of_lost_rays = 0
self.current_number_of_total_rays = 0
self.input_beam = None
else:
QtWidgets.QMessageBox.critical(
self, "Error",
"Number of Accumulated Rays reached, please push \'Send Signal\' button",
QtWidgets.QMessageBox.Ok)
def get_zone_plate_beam(self): # WS Units
empty_element = ShadowOpticalElement.create_empty_oe()
empty_element._oe.DUMMY = self.workspace_units_to_cm
empty_element._oe.T_SOURCE = self.source_plane_distance
empty_element._oe.T_IMAGE = 0.0
empty_element._oe.T_INCIDENCE = 0.0
empty_element._oe.T_REFLECTION = 180.0
empty_element._oe.ALPHA = 0.0
empty_element._oe.FWRITE = 3
empty_element._oe.F_ANGLE = 0
n_screen = 1
i_screen = numpy.array([0, 0, 0, 0, 0, 0, 0, 0, 0, 0])
i_abs = numpy.zeros(10)
i_slit = numpy.array([1, 0, 0, 0, 0, 0, 0, 0, 0, 0])
i_stop = numpy.zeros(10)
k_slit = numpy.array([1, 0, 0, 0, 0, 0, 0, 0, 0, 0])
thick = numpy.zeros(10)
file_abs = numpy.array(['', '', '', '', '', '', '', '', '', ''])
rx_slit = numpy.zeros(10)
rz_slit = numpy.zeros(10)
sl_dis = numpy.zeros(10)
file_scr_ext = numpy.array(['', '', '', '', '', '', '', '', '', ''])
cx_slit = numpy.zeros(10)
cz_slit = numpy.zeros(10)
sl_dis[0] = 0.0
rx_slit[0] = self.diameter*1e-6/self.workspace_units_to_m
rz_slit[0] = self.diameter*1e-6/self.workspace_units_to_m
cx_slit[0] = 0.0
cz_slit[0] = 0.0
empty_element._oe.set_screens(n_screen,
i_screen,
i_abs,
sl_dis,
i_slit,
i_stop,
k_slit,
thick,
file_abs,
rx_slit,
rz_slit,
cx_slit,
cz_slit,
file_scr_ext)
output_beam = ShadowBeam.traceFromOE(self.input_beam, empty_element, history=True)
go = numpy.where(output_beam._beam.rays[:, 9] == GOOD)
lo = numpy.where(output_beam._beam.rays[:, 9] != GOOD)
print("Zone Plate Beam: ", "GO", len(go[0]), "LO", len(lo[0]))
return output_beam
def convert_wavefront(self):
try:
if not self.wavefront is None:
self.send(
"ShadowBeam",
ShadowBeam(beam=SHADOW3Wavefront.fromGenericWavefront(
wavefront=self.wavefront,
shadow_to_meters=self.workspace_units_to_m)))
except Exception as exception:
QMessageBox.critical(self, "Error", str(exception), QMessageBox.Ok)
def read_shadow_beam(shadow_beam, lost=False):
cursor_go = np.where(shadow_beam._beam.rays[:, 9] == 1)
image_beam_rays = copy.deepcopy(shadow_beam._beam.rays[cursor_go])
image_beam_rays[:, 11] = np.arange(1, len(image_beam_rays) + 1, 1)
out_beam_go = ShadowBeam()
out_beam_go._beam.rays = image_beam_rays
if lost:
cursor_lo = np.where(shadow_beam._beam.rays[:, 9] != 1)
lost_rays = copy.deepcopy(shadow_beam._beam.rays[cursor_lo])
lost_rays[:, 11] = np.arange(1, len(lost_rays) + 1, 1)
out_beam_lo = ShadowBeam()
out_beam_lo._beam.rays = lost_rays
return out_beam_go, out_beam_lo
else:
return out_beam_go
def setBeam(self, beam):
if ShadowCongruence.checkEmptyBeam(beam):
if ShadowCongruence.checkGoodBeam(beam):
if self.keep_result == 1 and not self.input_beam is None:
self.input_beam = ShadowBeam.mergeBeams(self.input_beam, beam)
else:
self.input_beam = beam
if self.is_automatic_run:
self.plot_results()
else:
QtGui.QMessageBox.critical(self, "Error",
"Data not displayable: No good rays, bad content, bad limits or axes",
QtGui.QMessageBox.Ok)
def plot_results(self, beam_out, footprint_beam=None, progressBarValue=80):
if not self.view_type == 2:
if ShadowCongruence.checkEmptyBeam(beam_out):
if ShadowCongruence.checkGoodBeam(beam_out):
self.view_type_combo.setEnabled(False)
ShadowPlot.set_conversion_active(self.getConversionActive())
if self.isFootprintEnabled() and footprint_beam is None:
footprint_beam = ShadowBeam()
if beam_out._oe_number < 10:
footprint_beam.loadFromFile(file_name="mirr.0" + str(beam_out._oe_number))
else:
footprint_beam.loadFromFile(file_name="mirr." + str(beam_out._oe_number))
variables = self.getVariablestoPlot()
titles = self.getTitles()
xtitles = self.getXTitles()
ytitles = self.getYTitles()
xums = self.getXUM()
yums = self.getYUM()
try:
if self.view_type == 1:
self.plot_xy_fast(beam_out, progressBarValue + 4, variables[0][0], variables[0][1], plot_canvas_index=0, title=titles[0], xtitle=xtitles[0], ytitle=ytitles[0])
self.plot_xy_fast(beam_out, progressBarValue + 8, variables[1][0], variables[1][1], plot_canvas_index=1, title=titles[1], xtitle=xtitles[1], ytitle=ytitles[1])
self.plot_xy_fast(beam_out, progressBarValue + 12, variables[2][0], variables[2][1], plot_canvas_index=2, title=titles[2], xtitle=xtitles[2], ytitle=ytitles[2])
self.plot_xy_fast(beam_out, progressBarValue + 16, variables[3][0], variables[3][1], plot_canvas_index=3, title=titles[3], xtitle=xtitles[3], ytitle=ytitles[3])
self.plot_histo_fast(beam_out, progressBarValue + 20, variables[4], plot_canvas_index=4, title=titles[4], xtitle=xtitles[4], ytitle=ytitles[4])
if self.isFootprintEnabled():
self.plot_xy_fast(footprint_beam, progressBarValue + 20, 2, 1, plot_canvas_index=5, title="Footprint", xtitle="Y [" + self.workspace_units_label +"]", ytitle="X [" + self.workspace_units_label +"]", is_footprint=True)
elif self.view_type == 0:
self.plot_xy(beam_out, progressBarValue + 4, variables[0][0], variables[0][1], plot_canvas_index=0, title=titles[0], xtitle=xtitles[0], ytitle=ytitles[0], xum=xums[0], yum=yums[0])
self.plot_xy(beam_out, progressBarValue + 8, variables[1][0], variables[1][1], plot_canvas_index=1, title=titles[1], xtitle=xtitles[1], ytitle=ytitles[1], xum=xums[1], yum=yums[1])
self.plot_xy(beam_out, progressBarValue + 12, variables[2][0], variables[2][1], plot_canvas_index=2, title=titles[2], xtitle=xtitles[2], ytitle=ytitles[2], xum=xums[2], yum=yums[2])
self.plot_xy(beam_out, progressBarValue + 16, variables[3][0], variables[3][1], plot_canvas_index=3, title=titles[3], xtitle=xtitles[3], ytitle=ytitles[3], xum=xums[3], yum=yums[3])
self.plot_histo(beam_out, progressBarValue + 20, variables[4], plot_canvas_index=4, title=titles[4], xtitle=xtitles[4], ytitle=ytitles[4], xum=xums[4] )
if self.isFootprintEnabled():
self.plot_xy(footprint_beam, progressBarValue + 20, 2, 1, plot_canvas_index=5, title="Footprint", xtitle="Y [" + self.workspace_units_label +"]", ytitle="X [" + self.workspace_units_label +"]",
xum=("Y [" + self.workspace_units_label +"]"), yum=("X [" + self.workspace_units_label +"]"), is_footprint=True)
except Exception as e:
self.view_type_combo.setEnabled(True)
raise Exception("Data not plottable: No good rays or bad content\nexception: " + str(e))
self.view_type_combo.setEnabled(True)
else:
raise Exception("Beam with no good rays")
else:
raise Exception("Empty Beam")
self.plotted_beam = beam_out
def setBeam(self, beam):
if ShadowCongruence.checkEmptyBeam(beam):
proceed = True
if not ShadowCongruence.checkGoodBeam(beam):
if not ConfirmDialog.confirmed(parent=self, message="Beam contains bad values, skip it?"):
proceed = False
if proceed:
go = numpy.where(beam._beam.rays[:, 9] == 1)
nr_good = len(beam._beam.rays[go])
nr_total = len(beam._beam.rays)
nr_lost = nr_total - nr_good
intensity = beam._beam.histo1(1, nolost=1, ref=23)['intensity']
self.current_number_of_rays += nr_good
self.current_intensity += intensity
self.le_current_intensity.setText("{:10.3f}".format(self.current_intensity))
self.current_number_of_lost_rays += nr_lost
self.current_number_of_total_rays += nr_total
if (self.kind_of_accumulation == 0 and self.current_number_of_rays <= self.number_of_accumulated_rays) or \
(self.kind_of_accumulation == 1 and self.current_intensity <= self.number_of_accumulated_rays):
if self.keep_go_rays == 1:
beam._beam.rays = copy.deepcopy(beam._beam.rays[go])
if not self.input_beam is None:
self.input_beam = ShadowBeam.mergeBeams(self.input_beam, beam)
else:
beam._beam.rays[:, 11] = numpy.arange(1, len(beam._beam.rays) + 1, 1) # ray_index
self.input_beam = beam
self.send("Trigger", ShadowTriggerIn(new_beam=True))
else:
if self.is_automatic_run:
self.sendSignal()
self.current_number_of_rays = 0
self.current_intensity = 0.0
self.current_number_of_lost_rays = 0
self.current_number_of_total_rays = 0
self.input_beam = None
else:
QtGui.QMessageBox.critical(self, "Error",
"Number of Accumulated Rays reached, please push \'Send Signal\' button",
QtGui.QMessageBox.Ok)
def get_output_beam(self, focused_beam):
empty_element = ShadowOpticalElement.create_empty_oe()
empty_element._oe.DUMMY = 1.0 # self.workspace_units_to_cm
empty_element._oe.T_SOURCE = 0.0
empty_element._oe.T_IMAGE = self.image_plane_distance
empty_element._oe.T_INCIDENCE = 0.0
empty_element._oe.T_REFLECTION = 180.0
empty_element._oe.ALPHA = 0.0
empty_element._oe.FWRITE = 3
empty_element._oe.F_ANGLE = 0
return ShadowBeam.traceFromOE(focused_beam, empty_element, history=True)
def sendNewBeam(self, trigger):
self.scanning_data = None
if trigger and trigger.new_object == True:
if trigger.has_additional_parameter("seed_increment"):
self.seed += trigger.get_additional_parameter("seed_increment")
elif trigger.has_additional_parameter(
"variable_name") and self.is_scanning_enabled():
variable_name = trigger.get_additional_parameter(
"variable_name").strip()
variable_display_name = trigger.get_additional_parameter(
"variable_display_name").strip()
variable_value = trigger.get_additional_parameter(
"variable_value")
variable_um = trigger.get_additional_parameter("variable_um")
def check_number(x):
try:
return float(x)
except:
return x
if "," in variable_name:
variable_names = variable_name.split(",")
if isinstance(variable_value,
str) and "," in variable_value:
variable_values = variable_value.split(",")
for variable_name, variable_value in zip(
variable_names, variable_values):
setattr(self, variable_name.strip(),
check_number(variable_value))
self.check_source_options(variable_name)
else:
for variable_name in variable_names:
setattr(self, variable_name.strip(),
check_number(variable_value))
self.check_source_options(variable_name)
else:
setattr(self, variable_name, check_number(variable_value))
self.check_source_options(variable_name)
self.scanning_data = ShadowBeam.ScanningData(
variable_name, variable_value, variable_display_name,
variable_um)
self.runShadowSource()
def completeOperations(self, shadow_oe=None):
self.setStatusMessage("Running SHADOW")
if self.trace_shadow:
grabber = TTYGrabber()
grabber.start()
self.progressBarSet(50)
###########################################
# TODO: TO BE ADDED JUST IN CASE OF BROKEN
# ENVIRONMENT: MUST BE FOUND A PROPER WAY
# TO TEST SHADOW
self.fixWeirdShadowBug()
###########################################
write_start_files, write_end_files, write_star_files, write_mirr_files = self.get_write_file_options(
)
beam_out = ShadowBeam.traceFromCompoundOE(
self.input_beam,
shadow_oe,
write_start_files=write_start_files,
write_end_files=write_end_files,
write_star_files=write_star_files,
write_mirr_files=write_mirr_files,
widget_class_name=type(self).__name__)
if self.trace_shadow:
grabber.stop()
for row in grabber.ttyData:
self.writeStdOut(row)
self.setStatusMessage("Plotting Results")
self.plot_results(beam_out)
self.setStatusMessage("")
self.send("Beam", beam_out)
self.send("Trigger", TriggerIn(new_object=True))
def setBeam(self, beam):
if ShadowGui.checkEmptyBeam(beam):
if ShadowGui.checkGoodBeam(beam):
if self.keep_result == 1 and not self.input_beam is None:
self.input_beam = ShadowBeam.mergeBeams(self.input_beam, beam)
else:
self.input_beam = beam
if ShadowGui.checkEmptyBeam(self.input_beam):
if (self.input_beam.oe_number == 0): # IS THE SOURCE
self.image_plane = 0
self.set_ImagePlane()
self.image_plane_combo.setEnabled(False)
if self.is_automatic_run:
self.plot_results()
else:
QtGui.QMessageBox.critical(self, "QMessageBox.critical()",
"Data not displayable: No good rays or bad content",
QtGui.QMessageBox.Ok)
def completeOperations(self, shadow_oe=None):
self.setStatusMessage("Running SHADOW")
if self.trace_shadow:
grabber = TTYGrabber()
grabber.start()
self.progressBarSet(50)
###########################################
# TODO: TO BE ADDED JUST IN CASE OF BROKEN
# ENVIRONMENT: MUST BE FOUND A PROPER WAY
# TO TEST SHADOW
self.fixWeirdShadowBug()
###########################################
write_start_files, write_end_files, write_star_files, write_mirr_files = self.get_write_file_options()
beam_out = ShadowBeam.traceFromCompoundOE(self.input_beam,
shadow_oe,
write_start_files=write_start_files,
write_end_files=write_end_files,
write_star_files=write_star_files,
write_mirr_files=write_mirr_files,
widget_class_name=type(self).__name__
)
if self.trace_shadow:
grabber.stop()
for row in grabber.ttyData:
self.writeStdOut(row)
self.setStatusMessage("Plotting Results")
self.plot_results(beam_out)
self.setStatusMessage("")
self.send("Beam", beam_out)
self.send("Trigger", ShadowTriggerIn(new_beam=True))
def convertMapToBeam(self, x0s, x1s):
number_of_rays = x0s.size
if number_of_rays == 0: return None
beam_out = ShadowBeam(number_of_rays=number_of_rays)
x = x0s - self.image_nparray.shape[0] / 2
z = x1s - self.image_nparray.shape[1] / 2
x *= self.pixel_size * 1e-6 / self.workspace_units_to_m
z *= self.pixel_size * 1e-6 / self.workspace_units_to_m
for index in range(0, number_of_rays):
ray = beam_out._beam.rays[index]
ray[0] = x[index] # X
ray[1] = 0.0 # Y
ray[2] = z[index] # Z
ray[3] = 0 # director cos x
ray[4] = 1 # director cos y
ray[5] = 0 # director cos z
ray[6] = 1.0 / numpy.sqrt(2) # Es_x
ray[7] = 0.0 # Es_y
ray[8] = 0.0 # Es_z
ray[9] = 1 # good/lost
ray[10] = 2 * numpy.pi / 1e-8 # wavenumber
ray[11] = index # ray index
ray[12] = 1 # good only
ray[13] = 0.0 # Es_phi
ray[14] = 0.0 # Ep_phi
ray[15] = 0.0 # Ep_x
ray[16] = 0.0 # Ep_y
ray[17] = 1.0 / numpy.sqrt(2) # Ep_z
return beam_out
def setBeam(self, input_beam):
if input_beam.scanned_variable_data and input_beam.scanned_variable_data.has_additional_parameter("photon_energy_step"):
photon_energy = input_beam.scanned_variable_data.get_scanned_variable_value()
photon_energy_step = input_beam.scanned_variable_data.get_additional_parameter("photon_energy_step")
if input_beam.scanned_variable_data.has_additional_parameter("intensity_arrays") and self.redo_calculation == 0:
h_array, v_array, intensity_array = input_beam.scanned_variable_data.get_additional_parameter("intensity_arrays")
total_power = self.calculate_power(h_array, v_array, intensity_array, photon_energy_step)
else:
total_power = self.calc2d_srw(photon_energy, photon_energy_step, input_beam.scanned_variable_data)
additional_parameters = {}
additional_parameters["total_power"] = total_power
additional_parameters["photon_energy_step"] = photon_energy_step
input_beam.setScanningData(ShadowBeam.ScanningData(input_beam.scanned_variable_data.get_scanned_variable_name(),
photon_energy,
input_beam.scanned_variable_data.get_scanned_variable_display_name(),
input_beam.scanned_variable_data.get_scanned_variable_um(),
additional_parameters))
self.send("Beam", input_beam)
def read_file(self):
self.setStatusMessage("")
try:
if congruence.checkFileName(self.beam_file_name):
beam_out = ShadowBeam()
beam_out.loadFromFile(self.beam_file_name)
beam_out.history.append(ShadowOEHistoryItem()) # fake Source
beam_out._oe_number = 0
# just to create a safe history for possible re-tracing
beam_out.traceFromOE(beam_out,
self.create_dummy_oe(),
history=True)
path, file_name = os.path.split(self.beam_file_name)
self.setStatusMessage("Current: " + file_name)
self.send("Beam", beam_out)
except Exception as exception:
QtWidgets.QMessageBox.critical(self, "Error", str(exception),
QtWidgets.QMessageBox.Ok)
def read_file(self):
self.setStatusMessage("")
try:
if congruence.checkFileName(self.beam_file_name):
beam_out = ShadowBeam()
beam_out.loadFromFile(self.beam_file_name)
beam_out.history.append(ShadowOEHistoryItem()) # fake Source
beam_out._oe_number = 0
# just to create a safe history for possible re-tracing
beam_out.traceFromOE(beam_out, self.create_dummy_oe(), history=True)
path, file_name = os.path.split(self.beam_file_name)
self.setStatusMessage("Current: " + file_name)
self.send("Beam", beam_out)
except Exception as exception:
QtGui.QMessageBox.critical(self, "Error",
str(exception), QtGui.QMessageBox.Ok)
class Histogram(ow_automatic_element.AutomaticElement):
name = "Histogram"
description = "Display Data Tools: Histogram"
icon = "icons/histogram.png"
maintainer = "Luca Rebuffi"
maintainer_email = "lrebuffi(@at@)anl.gov"
priority = 2
category = "Display Data Tools"
keywords = ["data", "file", "load", "read"]
inputs = [("Input Beam", ShadowBeam, "setBeam")]
IMAGE_WIDTH = 878
IMAGE_HEIGHT = 635
want_main_area = 1
plot_canvas = None
input_beam = None
image_plane = Setting(0)
image_plane_new_position = Setting(10.0)
image_plane_rel_abs_position = Setting(0)
x_column_index = Setting(10)
x_range = Setting(0)
x_range_min = Setting(0.0)
x_range_max = Setting(0.0)
weight_column_index = Setting(23)
rays = Setting(1)
number_of_bins = Setting(100)
title = Setting("Energy")
autosave = Setting(0)
autosave_file_name = Setting("autosave_histogram_plot.hdf5")
keep_result = Setting(0)
autosave_partial_results = Setting(0)
is_conversion_active = Setting(1)
cumulated_ticket = None
plotted_ticket = None
autosave_file = None
autosave_prog_id = 0
def __init__(self):
super().__init__()
button_box = oasysgui.widgetBox(self.controlArea,
"",
addSpace=False,
orientation="horizontal")
gui.button(button_box,
self,
"Refresh",
callback=self.plot_results,
height=45)
gui.button(button_box,
self,
"Save Current Plot",
callback=self.save_results,
height=45)
gui.separator(self.controlArea, 10)
self.tabs_setting = oasysgui.tabWidget(self.controlArea)
self.tabs_setting.setFixedWidth(self.CONTROL_AREA_WIDTH - 5)
# graph tab
tab_set = oasysgui.createTabPage(self.tabs_setting, "Plot Settings")
tab_gen = oasysgui.createTabPage(self.tabs_setting,
"Histogram Settings")
screen_box = oasysgui.widgetBox(tab_set,
"Screen Position Settings",
addSpace=True,
orientation="vertical",
height=120)
self.image_plane_combo = gui.comboBox(
screen_box,
self,
"image_plane",
label="Position of the Image",
items=["On Image Plane", "Retraced"],
labelWidth=260,
callback=self.set_ImagePlane,
sendSelectedValue=False,
orientation="horizontal")
self.image_plane_box = oasysgui.widgetBox(screen_box,
"",
addSpace=False,
orientation="vertical",
height=50)
self.image_plane_box_empty = oasysgui.widgetBox(screen_box,
"",
addSpace=False,
orientation="vertical",
height=50)
oasysgui.lineEdit(self.image_plane_box,
self,
"image_plane_new_position",
"Image Plane new Position",
labelWidth=220,
valueType=float,
orientation="horizontal")
gui.comboBox(self.image_plane_box,
self,
"image_plane_rel_abs_position",
label="Position Type",
labelWidth=250,
items=["Absolute", "Relative"],
sendSelectedValue=False,
orientation="horizontal")
self.set_ImagePlane()
general_box = oasysgui.widgetBox(tab_set,
"General Settings",
addSpace=True,
orientation="vertical",
height=250)
self.x_column = gui.comboBox(
general_box,
self,
"x_column_index",
label="Column",
labelWidth=70,
items=[
"1: X",
"2: Y",
"3: Z",
"4: X'",
"5: Y'",
"6: Z'",
"7: E\u03c3 X",
"8: E\u03c3 Y",
"9: E\u03c3 Z",
"10: Ray Flag",
"11: Energy",
"12: Ray Index",
"13: Optical Path",
"14: Phase \u03c3",
"15: Phase \u03c0",
"16: E\u03c0 X",
"17: E\u03c0 Y",
"18: E\u03c0 Z",
"19: Wavelength",
"20: R = sqrt(X\u00b2 + Y\u00b2 + Z\u00b2)",
"21: Theta (angle from Y axis)",
"22: Magnitude = |E\u03c3| + |E\u03c0|",
"23: Total Intensity = |E\u03c3|\u00b2 + |E\u03c0|\u00b2",
"24: \u03a3 Intensity = |E\u03c3|\u00b2",
"25: \u03a0 Intensity = |E\u03c0|\u00b2",
"26: |K|",
"27: K X",
"28: K Y",
"29: K Z",
"30: S0-stokes = |E\u03c0|\u00b2 + |E\u03c3|\u00b2",
"31: S1-stokes = |E\u03c0|\u00b2 - |E\u03c3|\u00b2",
"32: S2-stokes = 2|E\u03c3||E\u03c0|cos(Phase \u03c3-Phase \u03c0)",
"33: S3-stokes = 2|E\u03c3||E\u03c0|sin(Phase \u03c3-Phase \u03c0)",
"34: Power = Intensity * Energy",
],
sendSelectedValue=False,
orientation="horizontal")
gui.comboBox(general_box,
self,
"x_range",
label="X Range",
labelWidth=250,
items=["<Default>", "Set.."],
callback=self.set_XRange,
sendSelectedValue=False,
orientation="horizontal")
self.xrange_box = oasysgui.widgetBox(general_box,
"",
addSpace=True,
orientation="vertical",
height=100)
self.xrange_box_empty = oasysgui.widgetBox(general_box,
"",
addSpace=True,
orientation="vertical",
height=100)
oasysgui.lineEdit(self.xrange_box,
self,
"x_range_min",
"X min",
labelWidth=220,
valueType=float,
orientation="horizontal")
oasysgui.lineEdit(self.xrange_box,
self,
"x_range_max",
"X max",
labelWidth=220,
valueType=float,
orientation="horizontal")
self.set_XRange()
self.weight_column = gui.comboBox(
general_box,
self,
"weight_column_index",
label="Weight",
labelWidth=70,
items=[
"0: No Weight",
"1: X",
"2: Y",
"3: Z",
"4: X'",
"5: Y'",
"6: Z'",
"7: E\u03c3 X",
"8: E\u03c3 Y",
"9: E\u03c3 Z",
"10: Ray Flag",
"11: Energy",
"12: Ray Index",
"13: Optical Path",
"14: Phase \u03c3",
"15: Phase \u03c0",
"16: E\u03c0 X",
"17: E\u03c0 Y",
"18: E\u03c0 Z",
"19: Wavelength",
"20: R = sqrt(X\u00b2 + Y\u00b2 + Z\u00b2)",
"21: Theta (angle from Y axis)",
"22: Magnitude = |E\u03c3| + |E\u03c0|",
"23: Total Intensity = |E\u03c3|\u00b2 + |E\u03c0|\u00b2",
"24: \u03a3 Intensity = |E\u03c3|\u00b2",
"25: \u03a0 Intensity = |E\u03c0|\u00b2",
"26: |K|",
"27: K X",
"28: K Y",
"29: K Z",
"30: S0-stokes = |E\u03c0|\u00b2 + |E\u03c3|\u00b2",
"31: S1-stokes = |E\u03c0|\u00b2 - |E\u03c3|\u00b2",
"32: S2-stokes = 2|E\u03c3||E\u03c0|cos(Phase \u03c3-Phase \u03c0)",
"33: S3-stokes = 2|E\u03c3||E\u03c0|sin(Phase \u03c3-Phase \u03c0)",
"34: Power = Intensity * Energy",
],
sendSelectedValue=False,
orientation="horizontal")
gui.comboBox(general_box,
self,
"rays",
label="Rays",
labelWidth=250,
items=["All rays", "Good Only", "Lost Only"],
sendSelectedValue=False,
orientation="horizontal")
autosave_box = oasysgui.widgetBox(tab_gen,
"Autosave",
addSpace=True,
orientation="vertical",
height=85)
gui.comboBox(autosave_box,
self,
"autosave",
label="Save automatically plot into file",
labelWidth=250,
items=["No", "Yes"],
sendSelectedValue=False,
orientation="horizontal",
callback=self.set_autosave)
self.autosave_box_1 = oasysgui.widgetBox(autosave_box,
"",
addSpace=False,
orientation="horizontal",
height=25)
self.autosave_box_2 = oasysgui.widgetBox(autosave_box,
"",
addSpace=False,
orientation="horizontal",
height=25)
self.le_autosave_file_name = oasysgui.lineEdit(
self.autosave_box_1,
self,
"autosave_file_name",
"File Name",
labelWidth=100,
valueType=str,
orientation="horizontal")
gui.button(self.autosave_box_1,
self,
"...",
callback=self.selectAutosaveFile)
incremental_box = oasysgui.widgetBox(tab_gen,
"Incremental Result",
addSpace=True,
orientation="vertical",
height=120)
gui.comboBox(incremental_box,
self,
"keep_result",
label="Keep Result",
labelWidth=250,
items=["No", "Yes"],
sendSelectedValue=False,
orientation="horizontal",
callback=self.set_autosave)
self.cb_autosave_partial_results = gui.comboBox(
incremental_box,
self,
"autosave_partial_results",
label="Save partial plots into file",
labelWidth=250,
items=["No", "Yes"],
sendSelectedValue=False,
orientation="horizontal")
gui.button(incremental_box, self, "Clear", callback=self.clearResults)
histograms_box = oasysgui.widgetBox(tab_gen,
"Histograms settings",
addSpace=True,
orientation="vertical",
height=90)
oasysgui.lineEdit(histograms_box,
self,
"number_of_bins",
"Number of Bins",
labelWidth=250,
valueType=int,
orientation="horizontal")
gui.comboBox(histograms_box,
self,
"is_conversion_active",
label="Is U.M. conversion active",
labelWidth=250,
items=["No", "Yes"],
sendSelectedValue=False,
orientation="horizontal")
self.set_autosave()
self.main_tabs = oasysgui.tabWidget(self.mainArea)
plot_tab = oasysgui.createTabPage(self.main_tabs, "Plots")
out_tab = oasysgui.createTabPage(self.main_tabs, "Output")
self.image_box = gui.widgetBox(plot_tab,
"Plot Result",
addSpace=True,
orientation="vertical")
self.image_box.setFixedHeight(self.IMAGE_HEIGHT)
self.image_box.setFixedWidth(self.IMAGE_WIDTH)
self.shadow_output = oasysgui.textArea(height=580, width=800)
out_box = gui.widgetBox(out_tab,
"System Output",
addSpace=True,
orientation="horizontal")
out_box.layout().addWidget(self.shadow_output)
def clearResults(self, interactive=True):
if not interactive: proceed = True
else: proceed = ConfirmDialog.confirmed(parent=self)
if proceed:
self.input_beam = ShadowBeam()
self.cumulated_ticket = None
self.plotted_ticket = None
self.autosave_prog_id = 0
if not self.autosave_file is None:
self.autosave_file.close()
self.autosave_file = None
self.plot_canvas.clear()
def set_XRange(self):
self.xrange_box.setVisible(self.x_range == 1)
self.xrange_box_empty.setVisible(self.x_range == 0)
def set_ImagePlane(self):
self.image_plane_box.setVisible(self.image_plane == 1)
self.image_plane_box_empty.setVisible(self.image_plane == 0)
def set_autosave(self):
self.autosave_box_1.setVisible(self.autosave == 1)
self.autosave_box_2.setVisible(self.autosave == 0)
self.cb_autosave_partial_results.setEnabled(self.autosave == 1
and self.keep_result == 1)
def selectAutosaveFile(self):
self.le_autosave_file_name.setText(
oasysgui.selectFileFromDialog(
self,
self.autosave_file_name,
"Select File",
file_extension_filter="HDF5 Files (*.hdf5 *.h5 *.hdf)"))
def replace_fig(self, beam, var, xrange, title, xtitle, ytitle, xum):
if self.plot_canvas is None:
self.plot_canvas = ShadowPlot.DetailedHistoWidget(
y_scale_factor=1.14)
self.image_box.layout().addWidget(self.plot_canvas)
try:
if self.autosave == 1:
if self.autosave_file is None:
self.autosave_file = ShadowPlot.HistogramHdf5File(
congruence.checkDir(self.autosave_file_name))
elif self.autosave_file.filename != congruence.checkFileName(
self.autosave_file_name):
self.autosave_file.close()
self.autosave_file = ShadowPlot.HistogramHdf5File(
congruence.checkDir(self.autosave_file_name))
if self.keep_result == 1:
self.cumulated_ticket, last_ticket = self.plot_canvas.plot_histo(
beam,
var,
self.rays,
xrange,
self.weight_column_index,
title,
xtitle,
ytitle,
nbins=self.number_of_bins,
xum=xum,
conv=self.workspace_units_to_cm,
ticket_to_add=self.cumulated_ticket)
self.plotted_ticket = self.cumulated_ticket
if self.autosave == 1:
self.autosave_prog_id += 1
self.autosave_file.write_coordinates(self.cumulated_ticket)
dataset_name = self.weight_column.itemText(
self.weight_column_index)
self.autosave_file.add_histogram(self.cumulated_ticket,
dataset_name=dataset_name)
if self.autosave_partial_results == 1:
if last_ticket is None:
self.autosave_file.add_histogram(
self.cumulated_ticket,
plot_name="Histogram #" +
str(self.autosave_prog_id),
dataset_name=dataset_name)
else:
self.autosave_file.add_histogram(
last_ticket,
plot_name="Histogram #" +
str(self.autosave_prog_id),
dataset_name=dataset_name)
self.autosave_file.flush()
else:
ticket, _ = self.plot_canvas.plot_histo(
beam,
var,
self.rays,
xrange,
self.weight_column_index,
title,
xtitle,
ytitle,
nbins=self.number_of_bins,
xum=xum,
conv=self.workspace_units_to_cm)
self.cumulated_ticket = None
self.plotted_ticket = ticket
if self.autosave == 1:
self.autosave_prog_id += 1
self.autosave_file.write_coordinates(ticket)
self.autosave_file.add_histogram(
ticket,
dataset_name=self.weight_column.itemText(
self.weight_column_index))
self.autosave_file.flush()
except Exception as e:
if not self.IS_DEVELOP:
raise Exception(
"Data not plottable: No good rays or bad content")
else:
raise e
def plot_histo(self, var_x, title, xtitle, ytitle, xum):
beam_to_plot = self.input_beam._beam
if self.image_plane == 1:
new_shadow_beam = self.input_beam.duplicate(history=False)
dist = 0.0
if self.image_plane_rel_abs_position == 1: # relative
dist = self.image_plane_new_position
else: # absolute
if self.input_beam.historySize() == 0:
historyItem = None
else:
historyItem = self.input_beam.getOEHistory(
oe_number=self.input_beam._oe_number)
if historyItem is None: image_plane = 0.0
elif self.input_beam._oe_number == 0: image_plane = 0.0
else: image_plane = historyItem._shadow_oe_end._oe.T_IMAGE
dist = self.image_plane_new_position - image_plane
self.retrace_beam(new_shadow_beam, dist)
beam_to_plot = new_shadow_beam._beam
xrange = self.get_range(beam_to_plot, var_x)
self.replace_fig(beam_to_plot, var_x, xrange, title, xtitle, ytitle,
xum)
def get_range(self, beam_to_plot, var_x):
if self.x_range == 0:
x_max = 0
x_min = 0
x, good_only = beam_to_plot.getshcol((var_x, 10))
x_to_plot = copy.deepcopy(x)
go = numpy.where(good_only == 1)
lo = numpy.where(good_only != 1)
if self.rays == 0:
x_max = numpy.array(x_to_plot[0:], float).max()
x_min = numpy.array(x_to_plot[0:], float).min()
elif self.rays == 1:
x_max = numpy.array(x_to_plot[go], float).max()
x_min = numpy.array(x_to_plot[go], float).min()
elif self.rays == 2:
x_max = numpy.array(x_to_plot[lo], float).max()
x_min = numpy.array(x_to_plot[lo], float).min()
xrange = [x_min, x_max]
else:
congruence.checkLessThan(self.x_range_min, self.x_range_max,
"X range min", "X range max")
factor1 = ShadowPlot.get_factor(var_x, self.workspace_units_to_cm)
xrange = [self.x_range_min / factor1, self.x_range_max / factor1]
return xrange
def save_results(self):
if not self.plotted_ticket is None:
try:
file_name, _ = QtWidgets.QFileDialog.getSaveFileName(
self,
"Save Current Plot",
filter="HDF5 Files (*.hdf5 *.h5 *.hdf)")
if not file_name is None and not file_name.strip() == "":
if not (file_name.endswith("hd5")
or file_name.endswith("hdf5")
or file_name.endswith("hdf")):
file_name += ".hdf5"
save_file = ShadowPlot.HistogramHdf5File(
congruence.checkDir(file_name))
save_file.write_coordinates(self.plotted_ticket)
dataset_name = self.weight_column.itemText(
self.weight_column_index)
save_file.add_histogram(self.plotted_ticket,
dataset_name=dataset_name)
save_file.close()
except Exception as exception:
QtWidgets.QMessageBox.critical(self, "Error", str(exception),
QtWidgets.QMessageBox.Ok)
if self.IS_DEVELOP: raise exception
def plot_results(self):
try:
plotted = False
sys.stdout = EmittingStream(textWritten=self.writeStdOut)
if self.trace_shadow:
grabber = TTYGrabber()
grabber.start()
if ShadowCongruence.checkEmptyBeam(self.input_beam):
ShadowPlot.set_conversion_active(self.getConversionActive())
self.number_of_bins = congruence.checkPositiveNumber(
self.number_of_bins, "Number of Bins")
x, auto_title, xum = self.get_titles()
self.plot_histo(x,
title=self.title,
xtitle=auto_title,
ytitle="Number of Rays",
xum=xum)
plotted = True
if self.trace_shadow:
grabber.stop()
for row in grabber.ttyData:
self.writeStdOut(row)
time.sleep(
0.5
) # prevents a misterious dead lock in the Orange cycle when refreshing the histogram
return plotted
except Exception as exception:
QtWidgets.QMessageBox.critical(self, "Error", str(exception),
QtWidgets.QMessageBox.Ok)
if self.IS_DEVELOP: raise exception
def get_titles(self):
auto_title = self.x_column.currentText().split(":", 2)[1]
xum = auto_title + " "
self.title = auto_title
x = self.x_column_index + 1
if x == 1 or x == 2 or x == 3:
if self.getConversionActive():
xum = xum + "[" + u"\u03BC" + "m]"
auto_title = auto_title + " [$\mu$m]"
else:
xum = xum + " [" + self.workspace_units_label + "]"
auto_title = auto_title + " [" + self.workspace_units_label + "]"
elif x == 4 or x == 5 or x == 6:
if self.getConversionActive():
xum = xum + "[" + u"\u03BC" + "rad]"
auto_title = auto_title + " [$\mu$rad]"
else:
xum = xum + " [rad]"
auto_title = auto_title + " [rad]"
elif x == 11:
xum = xum + "[eV]"
auto_title = auto_title + " [eV]"
elif x == 13:
xum = xum + " [" + self.workspace_units_label + "]"
auto_title = auto_title + " [" + self.workspace_units_label + "]"
elif x == 14:
xum = xum + "[rad]"
auto_title = auto_title + " [rad]"
elif x == 15:
xum = xum + "[rad]"
auto_title = auto_title + " [rad]"
elif x == 19:
xum = xum + "[Å]"
auto_title = auto_title + " [Å]"
elif x == 20:
xum = xum + " [" + self.workspace_units_label + "]"
auto_title = auto_title + " [" + self.workspace_units_label + "]"
elif x == 21:
xum = xum + "[rad]"
auto_title = auto_title + " [rad]"
elif x >= 25 and x <= 28:
xum = xum + "[Å-1]"
auto_title = auto_title + " [Å-1]"
return x, auto_title, xum
def setBeam(self, beam):
if ShadowCongruence.checkEmptyBeam(beam):
if ShadowCongruence.checkGoodBeam(beam):
self.input_beam = beam
if self.is_automatic_run:
self.plot_results()
else:
QtWidgets.QMessageBox.critical(
self, "Error",
"Data not displayable: No good rays or bad content",
QtWidgets.QMessageBox.Ok)
def writeStdOut(self, text):
cursor = self.shadow_output.textCursor()
cursor.movePosition(QtGui.QTextCursor.End)
cursor.insertText(text)
self.shadow_output.setTextCursor(cursor)
self.shadow_output.ensureCursorVisible()
def retrace_beam(self, new_shadow_beam, dist):
new_shadow_beam._beam.retrace(dist)
def getConversionActive(self):
return self.is_conversion_active == 1
def calculate(self):
beam_out = ShadowBeam()
beam_out.loadFromFile(self.beam_file_name)
self.send("Beam", beam_out)
class Histogram(ow_automatic_element.AutomaticElement):
name = "Histogram"
description = "Display Data Tools: Histogram"
icon = "icons/histogram.png"
maintainer = "Luca Rebuffi"
maintainer_email = "luca.rebuffi(@at@)elettra.eu"
priority = 2
category = "Display Data Tools"
keywords = ["data", "file", "load", "read"]
inputs = [("Input Beam", ShadowBeam, "setBeam")]
IMAGE_WIDTH = 1100
IMAGE_HEIGHT = 650
want_main_area=1
plot_canvas=None
input_beam=None
image_plane=Setting(0)
image_plane_new_position=Setting(10.0)
image_plane_rel_abs_position=Setting(0)
x_column_index=Setting(11)
number_of_bins=Setting(100)
title=Setting("Energy")
keep_result=Setting(0)
def __init__(self):
super().__init__()
tabs_setting = gui.tabWidget(self.controlArea)
tabs_setting.setFixedWidth(450)
gui.button(self.controlArea, self, "Refresh", callback=self.plot_results)
# graph tab
tab_gen = ShadowGui.createTabPage(tabs_setting, "Histogram")
incremental_box = ShadowGui.widgetBox(tab_gen, "Incremental Result", addSpace=True, orientation="horizontal", height=80)
gui.checkBox(incremental_box, self, "keep_result", "Keep Result")
gui.button(incremental_box, self, "Clear", callback=self.clearResults)
general_box = ShadowGui.widgetBox(tab_gen, "General Settings", addSpace=True, orientation="vertical", height=250)
self.image_plane_combo = gui.comboBox(general_box, self, "image_plane", label="Position of the Image",
items=["On Image Plane", "Retraced"],
callback=self.set_ImagePlane, sendSelectedValue=False, orientation="horizontal")
self.image_plane_box = ShadowGui.widgetBox(general_box, "", addSpace=True, orientation="vertical", height=110)
self.image_plane_box_empty = ShadowGui.widgetBox(general_box, "", addSpace=True, orientation="vertical", height=110)
ShadowGui.lineEdit(self.image_plane_box, self, "image_plane_new_position", "Image Plane new Position", labelWidth=220, valueType=float, orientation="horizontal")
gui.comboBox(self.image_plane_box, self, "image_plane_rel_abs_position", label="Position Type", labelWidth=250,
items=["Absolute", "Relative"], sendSelectedValue=False, orientation="horizontal")
self.set_ImagePlane()
self.x_column = gui.comboBox(general_box, self, "x_column_index", label="Column", labelWidth=80,
items=["1: X",
"2: Y",
"3: Z",
"4: X'",
"5: Y'",
"6: Z'",
"7: Es X",
"8: Es Y",
"9: Es Z",
"10: Ray Flag",
"11: Energy",
"12: Ray Index",
"13: Optical Path",
"14: Phase s",
"15: Phase p",
"16: Ep X",
"17: Ep Y",
"18: Ep Z",
"19: Wavelength",
"20: R = sqrt(X^2 + Y^2 + Z^2)",
"21: Theta (angle from Y axis)",
"22: Magnitude = |Es| + |Ep|",
"23: Total Intensity = |Es|^2 + |Ep|^2",
"24: S Intensity = |Es|^2",
"25: P Intensity = |Ep|^2",
"26: |K|",
"27: K X",
"28: K Y",
"29: K Z",
"30: S0-stokes = |Es|^2 + |Ep|^2",
"31: S1-stokes = |Es|^2 - |Ep|^2",
"32: S2-stokes = 2|Es||Ep|cos(Phase s-Phase p)",
"33: S3-stokes = 2|Es||Ep|sin(Phase s-Phase p)",
],
sendSelectedValue=False, orientation="horizontal")
histograms_box = ShadowGui.widgetBox(tab_gen, "Histograms settings", addSpace=True, orientation="vertical", height=70)
ShadowGui.lineEdit(histograms_box, self, "number_of_bins", "Number of Bins", labelWidth=250, valueType=int, orientation="horizontal")
self.image_box = gui.widgetBox(self.mainArea, "Plot Result", addSpace=True, orientation="vertical")
self.image_box.setFixedHeight(self.IMAGE_HEIGHT)
self.image_box.setFixedWidth(self.IMAGE_WIDTH)
self.shadow_output = QtGui.QTextEdit()
self.shadow_output.setReadOnly(True)
out_box = gui.widgetBox(self.mainArea, "System Output", addSpace=True, orientation="horizontal")
out_box.layout().addWidget(self.shadow_output)
out_box.setFixedWidth(self.IMAGE_WIDTH)
self.shadow_output.setFixedHeight(100)
self.shadow_output.setFixedWidth(self.IMAGE_WIDTH-50)
def clearResults(self):
if ConfirmDialog.confirmed(parent=self):
self.input_beam = ShadowBeam()
self.plot_canvas.clear()
def set_ImagePlane(self):
self.image_plane_box.setVisible(self.image_plane==1)
self.image_plane_box_empty.setVisible(self.image_plane==0)
def replace_fig(self, beam, var, title, xtitle, ytitle, xum):
if self.plot_canvas is None:
self.plot_canvas = ShadowPlot.DetailedHistoWidget()
self.image_box.layout().addWidget(self.plot_canvas)
try:
self.plot_canvas.plot_histo(beam, var, 1, None, 23, title, xtitle, ytitle, nbins=self.number_of_bins, xum=xum)
except Exception:
raise Exception("Data not plottable: No good rays or bad content")
def plot_histo(self, var_x, title, xtitle, ytitle, xum):
beam_to_plot = self.input_beam.beam
if self.image_plane == 1:
new_shadow_beam = self.input_beam.duplicate(history=False)
historyItem = self.input_beam.getOEHistory(oe_number=self.input_beam.oe_number)
if historyItem is None: raise Exception("Calculation impossible: Beam has no history")
dist = 0.0
if self.image_plane_rel_abs_position == 1: # relative
image_plane = 0.0
if type(historyItem.shadow_oe_end) == ShadowOpticalElement:
image_plane = historyItem.shadow_oe_end.oe.T_IMAGE
elif type(historyItem.shadow_oe_end) == ShadowCompoundOpticalElement:
image_plane = historyItem.shadow_oe_end.oe.list[historyItem.shadow_oe_end.oe.number_oe() - 1].T_IMAGE
if self.image_plane_new_position < 0 and abs(self.image_plane_new_position) > image_plane:
raise Exception("Image plane new position cannot be before the O.E.")
dist = self.image_plane_new_position
else: # absolute
ShadowGui.checkPositiveNumber(self.image_plane_new_position, "Image Plane new Position")
dist = self.image_plane_new_position - historyItem.shadow_oe_end.oe.T_IMAGE
new_shadow_beam.beam.retrace(dist)
beam_to_plot = new_shadow_beam.beam
self.replace_fig(beam_to_plot, var_x, title, xtitle, ytitle, xum)
def plot_results(self):
self.error(self.error_id)
try:
sys.stdout = EmittingStream(textWritten=self.writeStdOut)
if self.trace_shadow:
grabber = TTYGrabber()
grabber.start()
if ShadowGui.checkEmptyBeam(self.input_beam):
self.number_of_bins = ShadowGui.checkPositiveNumber(self.number_of_bins, "Number of Bins")
auto_title = self.x_column.currentText().split(":", 2)[1]
xum = auto_title + " "
self.title = auto_title
x = self.x_column_index + 1
if x == 1 or x == 2 or x == 3:
xum = xum + "[" + u"\u03BC" + "m]"
auto_title = auto_title + " [$\mu$m]"
elif x == 4 or x == 5 or x == 6:
xum = xum + "[" + u"\u03BC" + "rad]"
auto_title = auto_title + " [$\mu$rad]"
elif x == 11:
xum = xum + "[eV]"
auto_title = auto_title + " [eV]"
elif x == 13:
xum = xum + "[cm]"
auto_title = auto_title + " [cm]"
elif x == 14:
xum = xum + "[rad]"
auto_title = auto_title + " [rad]"
elif x == 15:
xum = xum + "[rad]"
auto_title = auto_title + " [rad]"
elif x == 19:
xum = xum + "[Å]"
auto_title = auto_title + " [Å]"
elif x == 20:
xum = xum + "[cm]"
auto_title = auto_title + " [cm]"
elif x == 21:
xum = xum + "[rad]"
auto_title = auto_title + " [rad]"
elif x >= 25 and x <= 28:
xum = xum + "[Å-1]"
auto_title = auto_title + " [Å-1]"
self.plot_histo(x, title=self.title, xtitle=auto_title, ytitle="Number of Rays", xum=xum)
if self.trace_shadow:
grabber.stop()
for row in grabber.ttyData:
self.writeStdOut(row)
time.sleep(0.5) # prevents a misterious dead lock in the Orange cycle when refreshing the histogram
except Exception as exception:
QtGui.QMessageBox.critical(self, "QMessageBox.critical()",
str(exception),
QtGui.QMessageBox.Ok)
self.error_id = self.error_id + 1
self.error(self.error_id, "Exception occurred: " + str(exception))
def setBeam(self, beam):
if ShadowGui.checkEmptyBeam(beam):
if ShadowGui.checkGoodBeam(beam):
if self.keep_result == 1 and not self.input_beam is None:
self.input_beam = ShadowBeam.mergeBeams(self.input_beam, beam)
else:
self.input_beam = beam
if ShadowGui.checkEmptyBeam(self.input_beam):
if (self.input_beam.oe_number == 0): # IS THE SOURCE
self.image_plane = 0
self.set_ImagePlane()
self.image_plane_combo.setEnabled(False)
if self.is_automatic_run:
self.plot_results()
else:
QtGui.QMessageBox.critical(self, "QMessageBox.critical()",
"Data not displayable: No good rays or bad content",
QtGui.QMessageBox.Ok)
def writeStdOut(self, text):
cursor = self.shadow_output.textCursor()
cursor.movePosition(QtGui.QTextCursor.End)
cursor.insertText(text)
self.shadow_output.setTextCursor(cursor)
self.shadow_output.ensureCursorVisible()
def completeOperations(self, shadow_oe):
shadow_oe_temp = shadow_oe.duplicate()
input_beam_temp = self.input_beam.duplicate(history=False)
self.manage_acceptance_slits(shadow_oe_temp)
ShadowBeam.traceFromOE(input_beam_temp,
shadow_oe_temp,
write_start_file=0,
write_end_file=0,
widget_class_name=type(self).__name__)
x, y, z = self.calculate_ideal_surface(shadow_oe_temp)
bender_parameter, z_bender_correction = self.calculate_bender_correction(
y, z, self.kind_of_bender, self.shape)
self.M1_out = round(bender_parameter[0],
int(6 * self.workspace_units_to_mm))
if self.shape == TRAPEZIUM:
self.e_out = round(bender_parameter[1], 5)
if self.kind_of_bender == DOUBLE_MOMENTUM:
self.ratio_out = round(bender_parameter[2], 5)
elif self.shape == RECTANGLE:
if self.kind_of_bender == DOUBLE_MOMENTUM:
self.ratio_out = round(bender_parameter[1], 5)
self.plot3D(x, y, z_bender_correction, 2, "Ideal - Bender Surfaces")
if self.modified_surface > 0:
x_e, y_e, z_e = ShadowPreProcessor.read_surface_error_file(
self.ms_defect_file_name)
if len(x) == len(x_e) and len(y) == len(y_e) and \
x[0] == x_e[0] and x[-1] == x_e[-1] and \
y[0] == y_e[0] and y[-1] == y_e[-1]:
z_figure_error = z_e
else:
z_figure_error = interp2d(y_e, x_e, z_e, kind='cubic')(y, x)
z_bender_correction += z_figure_error
self.plot3D(x, y, z_figure_error, 3, "Figure Error Surface")
self.plot3D(x, y, z_bender_correction, 4,
"Ideal - Bender + Figure Error Surfaces")
ST.write_shadow_surface(z_bender_correction.T, numpy.round(x, 6),
numpy.round(y, 6), self.output_file_name_full)
# Add new surface as figure error
shadow_oe._oe.F_RIPPLE = 1
shadow_oe._oe.F_G_S = 2
shadow_oe._oe.FILE_RIP = bytes(self.output_file_name_full, 'utf-8')
# Redo Raytracing with the new file
super().completeOperations(shadow_oe)
self.send(
"PreProcessor_Data",
ShadowPreProcessorData(
error_profile_data_file=self.output_file_name,
error_profile_x_dim=self.dim_x_plus + self.dim_x_minus,
error_profile_y_dim=self.dim_y_plus + self.dim_y_minus))
def runShadowSource(self):
#self.error(self.error_id)
self.setStatusMessage("")
self.progressBarInit()
try:
self.checkFields()
###########################################
# TODO: TO BE ADDED JUST IN CASE OF BROKEN
# ENVIRONMENT: MUST BE FOUND A PROPER WAY
# TO TEST SHADOW
self.fixWeirdShadowBug()
###########################################
shadow_src = ShadowSource.create_bm_src()
self.populateFields(shadow_src)
self.progressBarSet(10)
#self.information(0, "Running SHADOW")
self.setStatusMessage("Running SHADOW")
sys.stdout = EmittingStream(textWritten=self.writeStdOut)
if self.trace_shadow:
grabber = TTYGrabber()
grabber.start()
self.progressBarSet(50)
write_begin_file, write_start_file, write_end_file = self.get_write_file_options()
beam_out = ShadowBeam.traceFromSource(shadow_src,
write_begin_file=write_begin_file,
write_start_file=write_start_file,
write_end_file=write_end_file)
if self.trace_shadow:
grabber.stop()
for row in grabber.ttyData:
self.writeStdOut(row)
#self.information(0, "Plotting Results")
self.setStatusMessage("Plotting Results")
self.progressBarSet(80)
self.plot_results(beam_out)
#self.information()
self.setStatusMessage("")
self.send("Beam", beam_out)
except Exception as exception:
QtGui.QMessageBox.critical(self, "Error",
str(exception),
QtGui.QMessageBox.Ok)
#self.error_id = self.error_id + 1
#self.error(self.error_id, "Exception occurred: " + str(exception))
self.progressBarFinished()
def run_shadow4(self):
nTrajPoints = 501
#
# syned
#
syned_electron_beam = self.get_syned_electron_beam()
print(syned_electron_beam.info())
# B from file
if self.magnetic_field_source == 0:
syned_wiggler = Wiggler(K_vertical=self.k_value,
K_horizontal=0.0,
period_length=self.id_period,
number_of_periods=self.number_of_periods)
elif self.magnetic_field_source == 1:
syned_wiggler = MagneticStructure1DField.initialize_from_file(
self.file_with_b_vs_y)
elif self.magnetic_field_source == 2:
raise Exception(NotImplemented)
print(syned_wiggler.info())
sw = SourceWiggler()
sourcewiggler = SourceWiggler(name="test",
syned_electron_beam=syned_electron_beam,
syned_wiggler=syned_wiggler,
flag_emittance=True,
emin=self.e_min,
emax=self.e_max,
ng_e=100,
ng_j=nTrajPoints)
if self.e_min == self.e_max:
sourcewiggler.set_energy_monochromatic(self.e_min)
# sourcewiggler.set_electron_initial_conditions_by_label(velocity_label="value_at_zero",
# position_label="value_at_zero",)
sourcewiggler.set_electron_initial_conditions(
shift_x_flag=self.shift_x_flag,
shift_x_value=self.shift_x_value,
shift_betax_flag=self.shift_betax_flag,
shift_betax_value=self.shift_betax_value)
# sourcewiggler.calculate_radiation()
print(sourcewiggler.info())
t00 = time.time()
print(">>>> starting calculation...")
rays = sourcewiggler.calculate_rays(NRAYS=self.n_rays)
t11 = time.time() - t00
print(">>>> time for %d rays: %f s, %f min, " %
(self.n_rays, t11, t11 / 60))
print(">>> Results of calculate_radiation")
print(">>> trajectory.shape: ",
sourcewiggler._result_trajectory.shape)
print(">>> cdf: ", sourcewiggler._result_cdf.keys())
calculate_spectrum = True
if calculate_spectrum:
e, f, w = wiggler_spectrum(sourcewiggler._result_trajectory,
enerMin=self.e_min,
enerMax=self.e_max,
nPoints=500,
electronCurrent=self.ring_current,
outFile="",
elliptical=False)
# from srxraylib.plot.gol import plot
# plot(e, f, xlog=False, ylog=False, show=False,
# xtitle="Photon energy [eV]", ytitle="Flux [Photons/s/0.1%bw]", title="Flux")
# plot(e, w, xlog=False, ylog=False, show=True,
# xtitle="Photon energy [eV]", ytitle="Spectral Power [E/eV]", title="Spectral Power")
beam = Beam3.initialize_from_array(rays)
#
# wiggler plots
#
self.plot_widget_all(sourcewiggler, e, f, w)
self.shadowoui_beam = ShadowBeam(oe_number=0,
beam=beam,
number_of_rays=0)
self.plot_shadow_all()
self.send("Beam", self.shadowoui_beam)
shadow_src.src.VDIV2 = 1.0e-6
shadow_src.src.FSOURCE_DEPTH = 1 # OFF
shadow_src.src.F_COLOR = 1 # single value
shadow_src.src.F_PHOT = 0 # eV , 1 Angstrom
shadow_src.src.PH1 = 399.8
shadow_src.src.F_POLAR = 1
shadow_src.src.F_COHER = 0
shadow_src.src.POL_ANGLE = 0.0
shadow_src.src.POL_DEG = 1.0
shadow_src.src.F_OPD = 1
shadow_src.src.F_BOUND_SOUR = 0
print("Running SHADOW")
write_begin_file = 0
write_start_file = 0
write_end_file = 0
beam_out = ShadowBeam.traceFromSource(shadow_src,
write_begin_file=write_begin_file,
write_start_file=write_start_file,
write_end_file=write_end_file)
fix_Intensity(shadow_src.src.F_POLAR, beam_out)
out_object = beam_out
file_scr_ext = numpy.array(['', '', '', '', '', '', '', '', '', ''])
cx_slit = numpy.zeros(10)
cz_slit = numpy.zeros(10)
sl_dis[0] = 0.0
rx_slit[0] = diameter * 1e-4
rz_slit[0] = diameter * 1e-4
cx_slit[0] = 0.0
cz_slit[0] = 0.0
empty_element._oe.set_screens(n_screen, i_screen, i_abs, sl_dis, i_slit,
i_stop, k_slit, thick, file_abs, rx_slit,
rz_slit, cx_slit, cz_slit, file_scr_ext)
zone_plate_beam = ShadowBeam.traceFromOE(input_beam,
empty_element,
history=False)
go = numpy.where(zone_plate_beam._beam.rays[:, 9] == 1)
go_input_beam = ShadowBeam()
go_input_beam._beam.rays = copy.deepcopy(zone_plate_beam._beam.rays[go])
###################################################
avg_wavelength = ShadowPhysics.getWavelengthFromShadowK(
numpy.average(go_input_beam._beam.rays[:, 10])) * 1e-1 #ANGSTROM->nm
print("W", avg_wavelength, "nm")
focal_distance = (delta_rn * (1000 * diameter) / avg_wavelength) * 1e-7 # cm
def runShadowSource(self):
#self.error(self.error_id)
self.setStatusMessage("")
self.progressBarInit()
sys.stdout = EmittingStream(textWritten=self.writeStdOut)
if self.trace_shadow:
grabber = TTYGrabber()
grabber.start()
try:
self.checkFields()
###########################################
# TODO: TO BE ADDED JUST IN CASE OF BROKEN
# ENVIRONMENT: MUST BE FOUND A PROPER WAY
# TO TEST SHADOW
self.fixWeirdShadowBug()
###########################################
wigFile = bytes(congruence.checkFileName("xshwig.sha"), 'utf-8')
if self.type_combo == 0:
inData = ""
elif self.type_combo == 1:
inData = congruence.checkUrl(self.file_with_b_vs_y)
elif self.type_combo == 2:
inData = congruence.checkUrl(self.file_with_harmonics)
self.progressBarSet(10)
#self.information(0, "Calculate electron trajectory")
self.shadow_output.setText("")
self.setStatusMessage("Calculate electron trajectory")
(traj, pars) = srfunc.wiggler_trajectory(b_from=self.type_combo,
inData=inData,
nPer=self.number_of_periods,
nTrajPoints=501,
ener_gev=self.energy,
per=self.id_period,
kValue=self.k_value,
trajFile=congruence.checkFileName("tmp.traj"),
shift_x_flag=self.shift_x_flag,
shift_x_value=self.shift_x_value,
shift_betax_flag=self.shift_betax_flag,
shift_betax_value=self.shift_betax_value)
#
# calculate cdf and write file for Shadow/Source
#
self.progressBarSet(20)
#self.information(0, "Calculate cdf and write file for Shadow/Source")
self.setStatusMessage("Calculate cdf and write file for Shadow/Source")
srfunc.wiggler_cdf(traj,
enerMin=self.e_min,
enerMax=self.e_max,
enerPoints=1001,
outFile=wigFile,
elliptical=False)
#self.information(0, "CDF written to file %s \n"%(wigFile))
self.setStatusMessage("CDF written to file %s \n"%(str(wigFile)))
self.progressBarSet(40)
#self.information(0, "Set the wiggler parameters in the wiggler container")
self.setStatusMessage("Set the wiggler parameters in the wiggler container")
shadow_src = ShadowSource.create_wiggler_src()
self.populateFields(shadow_src)
shadow_src.src.FILE_TRAJ = wigFile
self.progressBarSet(50)
self.setStatusMessage("Running Shadow/Source")
write_begin_file, write_start_file, write_end_file = self.get_write_file_options()
beam_out = ShadowBeam.traceFromSource(shadow_src,
write_begin_file=write_begin_file,
write_start_file=write_start_file,
write_end_file=write_end_file)
if self.trace_shadow:
grabber.stop()
for row in grabber.ttyData:
self.writeStdOut(row)
#self.information(0, "Plotting Results")
self.setStatusMessage("Plotting Results")
self.progressBarSet(80)
self.plot_results(beam_out, progressBarValue=80)
self.setStatusMessage("Plotting Wiggler Data")
self.plot_wiggler_results()
#self.information()
self.setStatusMessage("")
self.send("Beam", beam_out)
#
# create python script for the preprocessors and display in the standard output
#
dict_parameters = {
"b_from" : self.type_combo,
"inData" : inData,
"nPer" : self.number_of_periods,
"nTrajPoints" : 501,
"ener_gev" : self.energy,
"per" : self.id_period,
"kValue" : self.k_value,
"trajFile" : "tmp.traj",
"shift_x_flag" : self.shift_x_flag,
"shift_x_value" : self.shift_x_value,
"shift_betax_flag" : self.shift_betax_flag,
"shift_betax_value" : self.shift_betax_value,
"enerMin" : self.e_min,
"enerMax" : self.e_max,
"enerPoints" : 1001,
"outFile" : wigFile,
"elliptical" : False,
"electron_current_mA" : self.electron_current,
}
# write python script in standard output
print(self.script_template().format_map(dict_parameters))
except Exception as exception:
QtWidgets.QMessageBox.critical(self, "Error",
str(exception),
QtWidgets.QMessageBox.Ok)
#self.error_id = self.error_id + 1
#self.error(self.error_id, "Exception occurred: " + str(exception))
self.progressBarFinished()
def runShadowSource(self):
#self.error(self.error_id)
self.setStatusMessage("")
self.progressBarInit()
try:
self.checkFields()
###########################################
# TODO: TO BE ADDED JUST IN CASE OF BROKEN
# ENVIRONMENT: MUST BE FOUND A PROPER WAY
# TO TEST SHADOW
self.fixWeirdShadowBug()
###########################################
wigFile = bytes(congruence.checkFileName("xshwig.sha"), 'utf-8')
if self.type_combo == 0:
inData = ""
elif self.type_combo == 1:
inData = congruence.checkFileName(self.file_with_b_vs_y)
elif self.type_combo == 2:
inData = congruence.checkFileName(self.file_with_harmonics)
self.progressBarSet(10)
#self.information(0, "Calculate electron trajectory")
self.setStatusMessage("Calculate electron trajectory")
(traj, pars) = srfunc.wiggler_trajectory(b_from=self.type_combo,
inData=inData,
nPer=self.number_of_periods,
nTrajPoints=501,
ener_gev=self.energy,
per=self.id_period,
kValue=self.k_value,
trajFile=congruence.checkFileName("tmp.traj"),
shift_x_flag=self.shift_x_flag,
shift_x_value=self.shift_x_value,
shift_betax_flag=self.shift_betax_flag,
shift_betax_value=self.shift_betax_value)
#
# calculate cdf and write file for Shadow/Source
#
self.progressBarSet(20)
#self.information(0, "Calculate cdf and write file for Shadow/Source")
self.setStatusMessage("Calculate cdf and write file for Shadow/Source")
srfunc.wiggler_cdf(traj,
enerMin=self.e_min,
enerMax=self.e_max,
enerPoints=1001,
outFile=wigFile,
elliptical=False)
#self.information(0, "CDF written to file %s \n"%(wigFile))
self.setStatusMessage("CDF written to file %s \n"%(str(wigFile)))
self.progressBarSet(40)
#self.information(0, "Set the wiggler parameters in the wiggler container")
self.setStatusMessage("Set the wiggler parameters in the wiggler container")
shadow_src = ShadowSource.create_wiggler_src()
self.populateFields(shadow_src)
shadow_src.src.FILE_TRAJ = wigFile
sys.stdout = EmittingStream(textWritten=self.writeStdOut)
if self.trace_shadow:
grabber = TTYGrabber()
grabber.start()
self.progressBarSet(50)
self.setStatusMessage("Running Shadow/Source")
write_begin_file, write_start_file, write_end_file = self.get_write_file_options()
beam_out = ShadowBeam.traceFromSource(shadow_src,
write_begin_file=write_begin_file,
write_start_file=write_start_file,
write_end_file=write_end_file)
if self.trace_shadow:
grabber.stop()
for row in grabber.ttyData:
self.writeStdOut(row)
#self.information(0, "Plotting Results")
self.setStatusMessage("Plotting Results")
self.progressBarSet(80)
self.plot_results(beam_out, 80)
self.setStatusMessage("Plotting Wiggler Data")
self.plot_wiggler_results()
#self.information()
self.setStatusMessage("")
self.send("Beam", beam_out)
except Exception as exception:
QtGui.QMessageBox.critical(self, "Error",
str(exception),
QtGui.QMessageBox.Ok)
#self.error_id = self.error_id + 1
#self.error(self.error_id, "Exception occurred: " + str(exception))
self.progressBarFinished()
def runShadowSource(self):
self.setStatusMessage("")
self.progressBarInit()
# this is to be able to start the widget out of Oasys
try:
tmp = self.workspace_units
except:
self.workspace_units = 'm'
self.workspace_units_label = 'm'
self.workspace_units_to_m = 1.0
self.workspace_units_to_cm = 1e2
self.workspace_units_to_mm = 1e3
self.checkFields()
self.progressBarSet(10)
self.setStatusMessage("Running SHADOW")
sys.stdout = EmittingStream(textWritten=self.writeStdOut)
if self.trace_shadow:
grabber = TTYGrabber()
grabber.start()
self.progressBarSet(50)
try:
self.shadow_output.setText("")
su = Undulator.initialize_as_vertical_undulator(
K=self.K,
period_length=self.period_length,
periods_number=int(self.periods_number))
ebeam = ElectronBeam(energy_in_GeV=self.energy_in_GeV,
energy_spread=0.0,
current=self.current,
number_of_bunches=1,
moment_xx=(self.sigma_x)**2,
moment_xxp=0.0,
moment_xpxp=(self.sigma_divergence_x)**2,
moment_yy=(self.sigma_z)**2,
moment_yyp=0.0,
moment_ypyp=(self.sigma_divergence_z)**2)
print(ebeam.info())
codes = ["internal", "pySRU", "SRW"]
selected_code = codes[self.code_undul_phot]
self.sourceundulator = SourceUndulator(
name="shadowOui-Full-Undulator",
syned_electron_beam=ebeam,
syned_undulator=su,
flag_emittance=self.use_emittances_combo,
flag_size=self.flag_size,
emin=1000, # to be set later
emax=1001, # to be set later
ng_e=2, # to be set later
maxangle=self.maxangle_urad * 1e-6,
ng_t=self.ng_t,
ng_p=self.ng_p,
ng_j=self.ng_j,
code_undul_phot=selected_code)
if self.set_at_resonance == 0:
if self.delta_e == 0:
self.sourceundulator.set_energy_box(
self.photon_energy, self.photon_energy, 1)
else:
self.sourceundulator.set_energy_box(
self.photon_energy - 0.5 * self.delta_e,
self.photon_energy + 0.5 * self.delta_e, self.ng_e)
else:
self.sourceundulator.set_energy_monochromatic_at_resonance(
self.harmonic)
if self.delta_e > 0.0:
e0, e1, ne = self.sourceundulator.get_energy_box()
self.sourceundulator.set_energy_box(
e0 - 0.5 * self.delta_e, e0 + 0.5 * self.delta_e,
self.ng_e)
rays = self.sourceundulator.calculate_rays(
user_unit_to_m=self.workspace_units_to_m,
F_COHER=self.coherent,
SEED=self.seed,
NRAYS=self.number_of_rays)
if self.plot_aux_graph:
self.set_PlotAuxGraphs()
print(self.sourceundulator.info())
shadow3_beam = Shadow3Beam(N=rays.shape[0])
shadow3_beam.rays = rays
if self.file_to_write_out >= 1:
shadow3_beam.write("begin.dat")
print("File written to disk: begin.dat")
if self.file_to_write_out >= 2:
SourceUndulatorInputOutput.write_file_undul_phot_h5(
self.sourceundulator.get_result_dictionary(),
file_out="radiation.h5",
mode="w",
entry_name="radiation")
beam_out = ShadowBeam(beam=shadow3_beam)
beam_out.getOEHistory().append(ShadowOEHistoryItem())
if self.add_power:
additional_parameters = {}
pd, vx, vy = self.sourceundulator.get_power_density_interpolated_cartesian(
)
total_power = self.power_step if self.power_step > 0 else pd.sum(
) * (vx[1] - vx[0]) * (vy[1] - vy[0])
additional_parameters["total_power"] = total_power
additional_parameters["photon_energy_step"] = self.delta_e
beam_out.setScanningData(
ShadowBeam.ScanningData("photon_energy",
self.photon_energy,
"Energy for Power Calculation",
"eV", additional_parameters))
if self.delta_e == 0.0:
beam_out.set_initial_flux(self.sourceundulator.get_flux()[0])
self.progressBarSet(80)
self.plot_results(beam_out)
#
# create python script for creating the shadow3 beam and display the script in the standard output
#
dict_parameters = {
"K": self.K,
"period_length": self.period_length,
"periods_number": self.periods_number,
"energy_in_GeV": self.energy_in_GeV,
"energy_spread": 0.0,
"current": self.current,
"number_of_bunches": 1,
"moment_xx": (self.sigma_x)**2,
"moment_xxp": 0.0,
"moment_xpxp": (self.sigma_divergence_x)**2,
"moment_yy": (self.sigma_z)**2,
"moment_yyp": 0.0,
"moment_ypyp": (self.sigma_divergence_z)**2,
"name": "shadowOui-Full-Undulator",
"flag_emittance": self.use_emittances_combo,
"flag_size": self.flag_size,
"emin": 1000, # to be set later
"emax": 1001, # to be set later
"ng_e": 2, # to be set later
"maxangle": self.maxangle_urad * 1e-6,
"ng_t": self.ng_t,
"ng_p": self.ng_p,
"ng_j": self.ng_j,
"code_undul_phot": selected_code,
"user_unit_to_m": self.workspace_units_to_m,
"F_COHER": self.coherent,
"SEED": self.seed,
"NRAYS": self.number_of_rays,
"EMIN": self.sourceundulator._EMIN,
"EMAX": self.sourceundulator._EMAX,
"NG_E": self.sourceundulator._NG_E,
"MAXANGLE": self.sourceundulator._MAXANGLE,
}
# write python script in standard output
print(self.script_template().format_map(dict_parameters))
self.setStatusMessage("")
self.send("Beam", beam_out)
except Exception as exception:
QtWidgets.QMessageBox.critical(self, "Error", str(exception),
QtWidgets.QMessageBox.Ok)
if self.IS_DEVELOP: raise exception
self.progressBarFinished()
class Histogram(ow_automatic_element.AutomaticElement):
name = "Histogram"
description = "Display Data Tools: Histogram"
icon = "icons/histogram.png"
maintainer = "Luca Rebuffi"
maintainer_email = "luca.rebuffi(@at@)elettra.eu"
priority = 2
category = "Display Data Tools"
keywords = ["data", "file", "load", "read"]
inputs = [("Input Beam", ShadowBeam, "setBeam")]
IMAGE_WIDTH = 860
IMAGE_HEIGHT = 640
want_main_area = 1
plot_canvas = None
input_beam = None
image_plane = Setting(0)
image_plane_new_position = Setting(10.0)
image_plane_rel_abs_position = Setting(0)
x_column_index = Setting(10)
x_range = Setting(0)
x_range_min = Setting(0.0)
x_range_max = Setting(0.0)
weight_column_index = Setting(23)
rays = Setting(1)
number_of_bins = Setting(100)
title = Setting("Energy")
keep_result = Setting(0)
is_conversion_active = Setting(1)
def __init__(self):
super().__init__()
gui.button(self.controlArea, self, "Refresh", callback=self.plot_results, height=45)
gui.separator(self.controlArea, 10)
self.tabs_setting = gui.tabWidget(self.controlArea)
self.tabs_setting.setFixedWidth(self.CONTROL_AREA_WIDTH - 5)
# graph tab
tab_set = oasysgui.createTabPage(self.tabs_setting, "Plot Settings")
tab_gen = oasysgui.createTabPage(self.tabs_setting, "Histogram Settings")
screen_box = oasysgui.widgetBox(
tab_set, "Screen Position Settings", addSpace=True, orientation="vertical", height=110
)
self.image_plane_combo = gui.comboBox(
screen_box,
self,
"image_plane",
label="Position of the Image",
items=["On Image Plane", "Retraced"],
labelWidth=260,
callback=self.set_ImagePlane,
sendSelectedValue=False,
orientation="horizontal",
)
self.image_plane_box = oasysgui.widgetBox(screen_box, "", addSpace=True, orientation="vertical", height=110)
self.image_plane_box_empty = oasysgui.widgetBox(
screen_box, "", addSpace=True, orientation="vertical", height=110
)
oasysgui.lineEdit(
self.image_plane_box,
self,
"image_plane_new_position",
"Image Plane new Position",
labelWidth=220,
valueType=float,
orientation="horizontal",
)
gui.comboBox(
self.image_plane_box,
self,
"image_plane_rel_abs_position",
label="Position Type",
labelWidth=250,
items=["Absolute", "Relative"],
sendSelectedValue=False,
orientation="horizontal",
)
self.set_ImagePlane()
general_box = oasysgui.widgetBox(tab_set, "General Settings", addSpace=True, orientation="vertical", height=250)
self.x_column = gui.comboBox(
general_box,
self,
"x_column_index",
label="Column",
labelWidth=70,
items=[
"1: X",
"2: Y",
"3: Z",
"4: X'",
"5: Y'",
"6: Z'",
"7: Es X",
"8: Es Y",
"9: Es Z",
"10: Ray Flag",
"11: Energy",
"12: Ray Index",
"13: Optical Path",
"14: Phase s",
"15: Phase p",
"16: Ep X",
"17: Ep Y",
"18: Ep Z",
"19: Wavelength",
"20: R = sqrt(X^2 + Y^2 + Z^2)",
"21: Theta (angle from Y axis)",
"22: Magnitude = |Es| + |Ep|",
"23: Total Intensity = |Es|^2 + |Ep|^2",
"24: S Intensity = |Es|^2",
"25: P Intensity = |Ep|^2",
"26: |K|",
"27: K X",
"28: K Y",
"29: K Z",
"30: S0-stokes = |Ep|^2 + |Es|^2",
"31: S1-stokes = |Ep|^2 - |Es|^2",
"32: S2-stokes = 2|Es||Ep|cos(Phase s-Phase p)",
"33: S3-stokes = 2|Es||Ep|sin(Phase s-Phase p)",
],
sendSelectedValue=False,
orientation="horizontal",
)
gui.comboBox(
general_box,
self,
"x_range",
label="X Range",
labelWidth=250,
items=["<Default>", "Set.."],
callback=self.set_XRange,
sendSelectedValue=False,
orientation="horizontal",
)
self.xrange_box = oasysgui.widgetBox(general_box, "", addSpace=True, orientation="vertical", height=100)
self.xrange_box_empty = oasysgui.widgetBox(general_box, "", addSpace=True, orientation="vertical", height=100)
oasysgui.lineEdit(
self.xrange_box, self, "x_range_min", "X min", labelWidth=220, valueType=float, orientation="horizontal"
)
oasysgui.lineEdit(
self.xrange_box, self, "x_range_max", "X max", labelWidth=220, valueType=float, orientation="horizontal"
)
self.set_XRange()
self.weight_column = gui.comboBox(
general_box,
self,
"weight_column_index",
label="Weight",
labelWidth=70,
items=[
"0: No Weight",
"1: X",
"2: Y",
"3: Z",
"4: X'",
"5: Y'",
"6: Z'",
"7: Es X",
"8: Es Y",
"9: Es Z",
"10: Ray Flag",
"11: Energy",
"12: Ray Index",
"13: Optical Path",
"14: Phase s",
"15: Phase p",
"16: Ep X",
"17: Ep Y",
"18: Ep Z",
"19: Wavelength",
"20: R = sqrt(X^2 + Y^2 + Z^2)",
"21: Theta (angle from Y axis)",
"22: Magnitude = |Es| + |Ep|",
"23: Total Intensity = |Es|^2 + |Ep|^2",
"24: S Intensity = |Es|^2",
"25: P Intensity = |Ep|^2",
"26: |K|",
"27: K X",
"28: K Y",
"29: K Z",
"30: S0-stokes = |Ep|^2 + |Es|^2",
"31: S1-stokes = |Ep|^2 - |Es|^2",
"32: S2-stokes = 2|Es||Ep|cos(Phase s-Phase p)",
"33: S3-stokes = 2|Es||Ep|sin(Phase s-Phase p)",
],
sendSelectedValue=False,
orientation="horizontal",
)
gui.comboBox(
general_box,
self,
"rays",
label="Rays",
labelWidth=250,
items=["All rays", "Good Only", "Lost Only"],
sendSelectedValue=False,
orientation="horizontal",
)
incremental_box = oasysgui.widgetBox(
tab_gen, "Incremental Result", addSpace=True, orientation="horizontal", height=80
)
gui.checkBox(incremental_box, self, "keep_result", "Keep Result")
gui.button(incremental_box, self, "Clear", callback=self.clearResults)
histograms_box = oasysgui.widgetBox(
tab_gen, "Histograms settings", addSpace=True, orientation="vertical", height=90
)
oasysgui.lineEdit(
histograms_box,
self,
"number_of_bins",
"Number of Bins",
labelWidth=250,
valueType=int,
orientation="horizontal",
)
gui.comboBox(
histograms_box,
self,
"is_conversion_active",
label="Is U.M. conversion active",
labelWidth=250,
items=["No", "Yes"],
sendSelectedValue=False,
orientation="horizontal",
)
self.main_tabs = gui.tabWidget(self.mainArea)
plot_tab = gui.createTabPage(self.main_tabs, "Plots")
out_tab = gui.createTabPage(self.main_tabs, "Output")
self.image_box = gui.widgetBox(plot_tab, "Plot Result", addSpace=True, orientation="vertical")
self.image_box.setFixedHeight(self.IMAGE_HEIGHT)
self.image_box.setFixedWidth(self.IMAGE_WIDTH)
self.shadow_output = QtGui.QTextEdit()
self.shadow_output.setReadOnly(True)
out_box = gui.widgetBox(out_tab, "System Output", addSpace=True, orientation="horizontal")
out_box.layout().addWidget(self.shadow_output)
self.shadow_output.setFixedHeight(600)
self.shadow_output.setFixedWidth(600)
def clearResults(self):
if ConfirmDialog.confirmed(parent=self):
self.input_beam = ShadowBeam()
self.plot_canvas.clear()
return True
else:
return False
def set_XRange(self):
self.xrange_box.setVisible(self.x_range == 1)
self.xrange_box_empty.setVisible(self.x_range == 0)
def set_ImagePlane(self):
self.image_plane_box.setVisible(self.image_plane == 1)
self.image_plane_box_empty.setVisible(self.image_plane == 0)
def replace_fig(self, beam, var, xrange, title, xtitle, ytitle, xum):
if self.plot_canvas is None:
self.plot_canvas = ShadowPlot.DetailedHistoWidget(y_scale_factor=1.14)
self.image_box.layout().addWidget(self.plot_canvas)
try:
self.plot_canvas.plot_histo(
beam,
var,
self.rays,
xrange,
self.weight_column_index,
title,
xtitle,
ytitle,
nbins=self.number_of_bins,
xum=xum,
conv=self.workspace_units_to_cm,
)
except Exception:
raise Exception("Data not plottable: No good rays or bad content")
def plot_histo(self, var_x, title, xtitle, ytitle, xum):
beam_to_plot = self.input_beam._beam
if self.image_plane == 1:
new_shadow_beam = self.input_beam.duplicate(history=False)
dist = 0.0
if self.image_plane_rel_abs_position == 1: # relative
dist = self.image_plane_new_position
else: # absolute
historyItem = self.input_beam.getOEHistory(oe_number=self.input_beam._oe_number)
if historyItem is None:
image_plane = 0.0
elif self.input_beam._oe_number == 0:
image_plane = 0.0
else:
image_plane = historyItem._shadow_oe_end._oe.T_IMAGE
dist = self.image_plane_new_position - image_plane
self.retrace_beam(new_shadow_beam, dist)
beam_to_plot = new_shadow_beam._beam
xrange = self.get_range(beam_to_plot, var_x)
self.replace_fig(beam_to_plot, var_x, xrange, title, xtitle, ytitle, xum)
def get_range(self, beam_to_plot, var_x):
if self.x_range == 0:
x_max = 0
x_min = 0
x, good_only = beam_to_plot.getshcol((var_x, 10))
x_to_plot = copy.deepcopy(x)
go = numpy.where(good_only == 1)
lo = numpy.where(good_only != 1)
if self.rays == 0:
x_max = numpy.array(x_to_plot[0:], float).max()
x_min = numpy.array(x_to_plot[0:], float).min()
elif self.rays == 1:
x_max = numpy.array(x_to_plot[go], float).max()
x_min = numpy.array(x_to_plot[go], float).min()
elif self.rays == 2:
x_max = numpy.array(x_to_plot[lo], float).max()
x_min = numpy.array(x_to_plot[lo], float).min()
xrange = [x_min, x_max]
else:
if self.x_range_min >= self.x_range_max:
raise Exception("X range min cannot be greater or equal than X range max")
factor1 = ShadowPlot.get_factor(var_x, self.workspace_units_to_cm)
xrange = [self.x_range_min / factor1, self.x_range_max / factor1]
return xrange
def plot_results(self):
# self.error(self.error_id)
try:
plotted = False
sys.stdout = EmittingStream(textWritten=self.writeStdOut)
if self.trace_shadow:
grabber = TTYGrabber()
grabber.start()
if ShadowCongruence.checkEmptyBeam(self.input_beam):
ShadowPlot.set_conversion_active(self.getConversionActive())
self.number_of_bins = congruence.checkPositiveNumber(self.number_of_bins, "Number of Bins")
x, auto_title, xum = self.get_titles()
self.plot_histo(x, title=self.title, xtitle=auto_title, ytitle="Number of Rays", xum=xum)
plotted = True
if self.trace_shadow:
grabber.stop()
for row in grabber.ttyData:
self.writeStdOut(row)
time.sleep(0.5) # prevents a misterious dead lock in the Orange cycle when refreshing the histogram
return plotted
except Exception as exception:
QtGui.QMessageBox.critical(self, "Error", str(exception), QtGui.QMessageBox.Ok)
# self.error_id = self.error_id + 1
# self.error(self.error_id, "Exception occurred: " + str(exception))
return False
def get_titles(self):
auto_title = self.x_column.currentText().split(":", 2)[1]
xum = auto_title + " "
self.title = auto_title
x = self.x_column_index + 1
if x == 1 or x == 2 or x == 3:
if self.getConversionActive():
xum = xum + "[" + u"\u03BC" + "m]"
auto_title = auto_title + " [$\mu$m]"
else:
xum = xum + " [" + self.workspace_units_label + "]"
auto_title = auto_title + " [" + self.workspace_units_label + "]"
elif x == 4 or x == 5 or x == 6:
if self.getConversionActive():
xum = xum + "[" + u"\u03BC" + "rad]"
auto_title = auto_title + " [$\mu$rad]"
else:
xum = xum + " [rad]"
auto_title = auto_title + " [rad]"
elif x == 11:
xum = xum + "[eV]"
auto_title = auto_title + " [eV]"
elif x == 13:
xum = xum + " [" + self.workspace_units_label + "]"
auto_title = auto_title + " [" + self.workspace_units_label + "]"
elif x == 14:
xum = xum + "[rad]"
auto_title = auto_title + " [rad]"
elif x == 15:
xum = xum + "[rad]"
auto_title = auto_title + " [rad]"
elif x == 19:
xum = xum + "[Å]"
auto_title = auto_title + " [Å]"
elif x == 20:
xum = xum + " [" + self.workspace_units_label + "]"
auto_title = auto_title + " [" + self.workspace_units_label + "]"
elif x == 21:
xum = xum + "[rad]"
auto_title = auto_title + " [rad]"
elif x >= 25 and x <= 28:
xum = xum + "[Å-1]"
auto_title = auto_title + " [Å-1]"
return x, auto_title, xum
def setBeam(self, beam):
if ShadowCongruence.checkEmptyBeam(beam):
if ShadowCongruence.checkGoodBeam(beam):
if self.keep_result == 1 and not self.input_beam is None:
self.input_beam = ShadowBeam.mergeBeams(self.input_beam, beam)
else:
self.input_beam = beam
if self.is_automatic_run:
self.plot_results()
else:
QtGui.QMessageBox.critical(
self, "Error", "Data not displayable: No good rays or bad content", QtGui.QMessageBox.Ok
)
def writeStdOut(self, text):
cursor = self.shadow_output.textCursor()
cursor.movePosition(QtGui.QTextCursor.End)
cursor.insertText(text)
self.shadow_output.setTextCursor(cursor)
self.shadow_output.ensureCursorVisible()
def retrace_beam(self, new_shadow_beam, dist):
new_shadow_beam._beam.retrace(dist)
def getConversionActive(self):
return self.is_conversion_active == 1
def calculate_footprint(self):
self.setStatusMessage("")
try:
beam_out = self.footprint_beam.duplicate()
beam_out.history.append(ShadowOEHistoryItem()) # fake Source
beam_out._oe_number = 0
# just to create a safe history for possible re-tracing
beam_out.traceFromOE(beam_out,
self.create_dummy_oe(),
history=True)
total_power = self.input_beam.scanned_variable_data.get_additional_parameter(
"total_power")
additional_parameters = {}
additional_parameters["total_power"] = total_power
additional_parameters[
"photon_energy_step"] = self.input_beam.scanned_variable_data.get_additional_parameter(
"photon_energy_step")
additional_parameters["is_footprint"] = True
n_rays = len(beam_out._beam.rays[:, 0]) # lost and good!
incident_beam = self.input_beam.getOEHistory(
self.input_beam._oe_number)._input_beam
ticket = incident_beam._beam.histo2(1,
3,
nbins=100,
xrange=None,
yrange=None,
nolost=1,
ref=23)
ticket['histogram'] *= (total_power / n_rays) # power
additional_parameters["incident_power"] = ticket['histogram'].sum()
if self.kind_of_power == 0: # incident
beam_out._beam.rays[:, 6] = incident_beam._beam.rays[:, 6]
beam_out._beam.rays[:, 7] = incident_beam._beam.rays[:, 7]
beam_out._beam.rays[:, 8] = incident_beam._beam.rays[:, 8]
beam_out._beam.rays[:, 15] = incident_beam._beam.rays[:, 15]
beam_out._beam.rays[:, 16] = incident_beam._beam.rays[:, 16]
beam_out._beam.rays[:, 17] = incident_beam._beam.rays[:, 17]
elif self.kind_of_power == 1: # absorbed
# need a trick: put the whole intensity of one single component
incident_intensity = incident_beam._beam.rays[:, 6]**2 + incident_beam._beam.rays[:, 7]**2 + incident_beam._beam.rays[:, 8]**2 +\
incident_beam._beam.rays[:, 15]**2 + incident_beam._beam.rays[:, 16]**2 + incident_beam._beam.rays[:, 17]**2
transmitted_intensity = beam_out._beam.rays[:, 6]**2 + beam_out._beam.rays[:, 7]**2 + beam_out._beam.rays[:, 8]**2 +\
beam_out._beam.rays[:, 15]**2 + beam_out._beam.rays[:, 16]**2 + beam_out._beam.rays[:, 17]**2
electric_field = numpy.sqrt(incident_intensity -
transmitted_intensity)
electric_field[numpy.where(electric_field == numpy.nan)] = 0.0
beam_out._beam.rays[:, 6] = electric_field
beam_out._beam.rays[:, 7] = 0.0
beam_out._beam.rays[:, 8] = 0.0
beam_out._beam.rays[:, 15] = 0.0
beam_out._beam.rays[:, 16] = 0.0
beam_out._beam.rays[:, 17] = 0.0
beam_out.setScanningData(
ShadowBeam.ScanningData(
self.input_beam.scanned_variable_data.
get_scanned_variable_name(),
self.input_beam.scanned_variable_data.
get_scanned_variable_value(),
self.input_beam.scanned_variable_data.
get_scanned_variable_display_name(),
self.input_beam.scanned_variable_data.
get_scanned_variable_um(), additional_parameters))
self.send("Beam", beam_out)
except Exception as exception:
QtWidgets.QMessageBox.critical(self, "Error", str(exception),
QtWidgets.QMessageBox.Ok)
def from_photon_bunch_to_shadow(self):
photon_beam = self.incoming_bunch
N = photon_beam.getArrayByKey("number of photons")
energies = photon_beam.getArrayByKey("energies")
S0 = photon_beam.getArrayByKey("s0")
S1 = photon_beam.getArrayByKey("s1")
S2 = photon_beam.getArrayByKey("s2")
S3 = photon_beam.getArrayByKey("s3")
vx = photon_beam.getArrayByKey("vx")
vy = photon_beam.getArrayByKey("vy")
vz = photon_beam.getArrayByKey("vz")
beam = Shadow.Beam(N)
A2EV = 2.0 * numpy.pi / (codata.h * codata.c / codata.e * 1e2)
for i in range(N):
s0 = S0[i]
s1 = S1[i]
s2 = S2[i]
s3 = S3[i]
energy = energies[i]
if (numpy.abs(s1**2 + s2**2 + s3**2 - s0**2) > 1e-4):
s0 = numpy.sqrt(s1**2 + s2**2 + s3**2)
print("Warning: Beam is not fully polarized.")
Ex2 = 0.5 * (s0 + s1)
Ez2 = 0.5 * (s0 - s1)
Ex = numpy.sqrt(Ex2)
Ez = numpy.sqrt(Ez2)
if s0 == s1:
sin2delta = 0.0
else:
sin2delta = -0.5 * ((s2**2 - s3**2) / (4 * Ex2 * Ez2) - 1)
delta = numpy.arcsin(numpy.sign(s3) * numpy.sqrt(sin2delta))
beam.rays[i, 0] = 0.0 # x
beam.rays[i, 1] = 0.0 # x
beam.rays[i, 2] = 0.0 # x
beam.rays[i, 3] = vx[i] # v
beam.rays[i, 4] = vy[i] # v
beam.rays[i, 5] = vz[i] # v
beam.rays[i, 6] = Ex # Es
beam.rays[i, 7] = 0.0 # Es
beam.rays[i, 8] = 0.0 # Es
beam.rays[i, 9] = 1.0 # lost ray flag
beam.rays[i, 10] = A2EV * energy # k
beam.rays[i, 11] = i # ray index
beam.rays[i, 12] = 0.0 # path length
beam.rays[i, 13] = 0.0 # phase-s
beam.rays[i, 14] = delta # phase-ps
beam.rays[i, 15] = 0.0 # Ep
beam.rays[i, 16] = 0.0 # Ep
beam.rays[i, 17] = Ez # Ep
beam_out = ShadowBeam(beam=beam)
beam_out.history.append(ShadowOEHistoryItem()) # fake Source
beam_out._oe_number = 0
# just to create a safe history for possible re-tracing
beam_out.traceFromOE(beam_out, self.create_dummy_oe(), history=True)
#self.send("Beam", beam_out)
return beam_out
def traceOpticalElement(self):
try:
self.error(self.error_id)
self.setStatusMessage("")
self.progressBarInit()
if ShadowCongruence.checkEmptyBeam(self.input_beam):
if ShadowCongruence.checkGoodBeam(self.input_beam):
sys.stdout = EmittingStream(textWritten=self.writeStdOut)
self.progressBarSet(10)
self.checkFields()
self.setStatusMessage("Running SHADOW")
if self.trace_shadow:
grabber = TTYGrabber()
grabber.start()
self.progressBarSet(50)
###########################################
# TODO: TO BE ADDED JUST IN CASE OF BROKEN
# ENVIRONMENT: MUST BE FOUND A PROPER WAY
# TO TEST SHADOW
self.fixWeirdShadowBug()
###########################################
shadow_oe_1 = ShadowOpticalElement.create_screen_slit()
self.populateFields_1(shadow_oe_1)
beam_out = ShadowBeam.traceFromOE(self.input_beam, shadow_oe_1)
self.adjust_first_divergence(beam_out)
self.progressBarSet(60)
shadow_oe_2 = ShadowOpticalElement.create_screen_slit()
self.populateFields_2(shadow_oe_2)
beam_out = ShadowBeam.traceFromOE(beam_out, shadow_oe_2)
self.adjust_second_divergence_and_intensity(beam_out)
self.progressBarSet(70)
shadow_oe_3 = ShadowOpticalElement.create_screen_slit()
self.populateFields_3(shadow_oe_3)
beam_out = ShadowBeam.traceFromOE(beam_out, shadow_oe_3)
if self.trace_shadow:
grabber.stop()
for row in grabber.ttyData:
self.writeStdOut(row)
self.setStatusMessage("Plotting Results")
self.plot_results(beam_out)
self.setStatusMessage("")
self.send("Beam", beam_out)
self.send("Trigger", TriggerIn(new_object=True))
else:
raise Exception("Input Beam with no good rays")
else:
raise Exception("Empty Input Beam")
except Exception as exception:
QtWidgets.QMessageBox.critical(self, "QMessageBox.critical()",
str(exception),
QtWidgets.QMessageBox.Ok)
self.error_id = self.error_id + 1
self.error(self.error_id, "Exception occurred: " + str(exception))
self.progressBarFinished()
def sh_readsh(shfilename):
image_beam = ShadowBeam()
image_beam.loadFromFile(congruence.checkFile(shfilename))
return read_shadow_beam(image_beam)
def traceOpticalElement(self):
try:
self.error(self.error_id)
self.setStatusMessage("")
self.progressBarInit()
if ShadowCongruence.checkEmptyBeam(self.input_beam):
if ShadowCongruence.checkGoodBeam(self.input_beam):
sys.stdout = EmittingStream(textWritten=self.writeStdOut)
self.progressBarSet(10)
self.checkFields()
self.setStatusMessage("Running SHADOW")
if self.trace_shadow:
grabber = TTYGrabber()
grabber.start()
self.progressBarSet(50)
###########################################
# TODO: TO BE ADDED JUST IN CASE OF BROKEN
# ENVIRONMENT: MUST BE FOUND A PROPER WAY
# TO TEST SHADOW
self.fixWeirdShadowBug()
###########################################
shadow_oe_1 = ShadowOpticalElement.create_screen_slit()
self.populateFields_1(shadow_oe_1)
beam_out = ShadowBeam.traceFromOE(self.input_beam, shadow_oe_1)
self.adjust_first_divergence(beam_out)
self.progressBarSet(60)
shadow_oe_2 = ShadowOpticalElement.create_screen_slit()
self.populateFields_2(shadow_oe_2)
beam_out = ShadowBeam.traceFromOE(beam_out, shadow_oe_2)
self.adjust_second_divergence_and_intensity(beam_out)
self.progressBarSet(70)
shadow_oe_3 = ShadowOpticalElement.create_screen_slit()
self.populateFields_3(shadow_oe_3)
beam_out = ShadowBeam.traceFromOE(beam_out, shadow_oe_3)
if self.trace_shadow:
grabber.stop()
for row in grabber.ttyData:
self.writeStdOut(row)
self.setStatusMessage("Plotting Results")
self.plot_results(beam_out)
self.setStatusMessage("")
self.send("Beam", beam_out)
self.send("Trigger", ShadowTriggerIn(new_beam=True))
else:
raise Exception("Input Beam with no good rays")
else:
raise Exception("Empty Input Beam")
except Exception as exception:
QtGui.QMessageBox.critical(self, "QMessageBox.critical()",
str(exception),
QtGui.QMessageBox.Ok)
self.error_id = self.error_id + 1
self.error(self.error_id, "Exception occurred: " + str(exception))
self.progressBarFinished()
empty_element._oe.DUMMY = 1.0 # self.workspace_units_to_cm
empty_element._oe.T_SOURCE = 0.0
empty_element._oe.T_IMAGE = 0.0
empty_element._oe.T_INCIDENCE = 0.0
empty_element._oe.T_REFLECTION = 180.0
empty_element._oe.ALPHA = 0.0
empty_element._oe.FWRITE = 3
empty_element._oe.F_ANGLE = 0
return empty_element
app = QApplication(sys.argv)
w = PlotScatter()
# load a Beam
from orangecontrib.shadow.util.shadow_objects import ShadowOEHistoryItem
beam_out = ShadowBeam()
beam_out.loadFromFile("/home/manuel/Oasys/mirr.02")
beam_out.history.append(ShadowOEHistoryItem()) # fake Source
beam_out._oe_number = 0
# just to create a safe history for possible re-tracing
beam_out.traceFromOE(beam_out, create_dummy_oe(), history=True)
w.workspace_units_to_cm = 1.0
w.setBeam(beam_out)
w.show()
app.exec()
w.saveSettings()
