def test_FitGammaHillas():
'''
a test of the complete fit procedure on one event including:
• tailcut cleaning
• hillas parametrisation
• GreatCircle creation
• direction fit
• position fit
in the end, proper units in the output are asserted '''
filename = get_path("gamma_test.simtel.gz")
fit = FitGammaHillas()
cam_geom = {}
tel_phi = {}
tel_theta = {}
source = hessio_event_source(filename)
for event in source:
hillas_dict = {}
for tel_id in event.dl0.tels_with_data:
if tel_id not in cam_geom:
cam_geom[tel_id] = CameraGeometry.guess(
event.inst.pixel_pos[tel_id][0],
event.inst.pixel_pos[tel_id][1],
event.inst.optical_foclen[tel_id])
tel_phi[tel_id] = 0.*u.deg
tel_theta[tel_id] = 20.*u.deg
pmt_signal = event.dl0.tel[tel_id].adc_sums[0]
mask = tailcuts_clean(cam_geom[tel_id], pmt_signal, 1,
picture_thresh=10., boundary_thresh=5.)
pmt_signal[mask == 0] = 0
try:
moments = hillas_parameters(event.inst.pixel_pos[tel_id][0],
event.inst.pixel_pos[tel_id][1],
pmt_signal)
hillas_dict[tel_id] = moments
except HillasParameterizationError as e:
print(e)
continue
if len(hillas_dict) < 2: continue
fit_result = fit.predict(hillas_dict, event.inst, tel_phi, tel_theta)
print(fit_result)
fit_result.alt.to(u.deg)
fit_result.az.to(u.deg)
fit_result.core_x.to(u.m)
assert fit_result.is_valid
return
def get_test_event():
filename = get_path('gamma_test.simtel.gz')
source = hessio_event_source(filename,
requested_event=409,
use_event_id=True)
event = next(source)
return event
def test_FitGammaHillas():
'''
a test on one event of the complete fit procedure including:
• tailcut cleaning
• hillas parametrisation
• GreatCircle creation
• direction fit
• position fit
in the end, proper units in the output are asserted '''
filename = get_path("gamma_test.simtel.gz")
fit = FitGammaHillas()
cam_geom = {}
tel_phi = {}
tel_theta = {}
source = hessio_event_source(filename)
for event in source:
hillas_dict = {}
for tel_id in event.dl0.tels_with_data:
if tel_id not in cam_geom:
cam_geom[tel_id] = CameraGeometry.guess(
event.inst.pixel_pos[tel_id][0],
event.inst.pixel_pos[tel_id][1],
event.inst.optical_foclen[tel_id])
tel_phi[tel_id] = 180.*u.deg
tel_theta[tel_id] = 20.*u.deg
pmt_signal = event.dl0.tel[tel_id].adc_sums[0]
mask = tailcuts_clean(cam_geom[tel_id], pmt_signal, 1,
picture_thresh=10., boundary_thresh=5.)
pmt_signal[mask == 0] = 0
try:
moments = hillas_parameters(event.inst.pixel_pos[tel_id][0],
event.inst.pixel_pos[tel_id][1],
pmt_signal)
hillas_dict[tel_id] = moments
except HillasParameterizationError as e:
print(e)
continue
if len(hillas_dict) < 2: continue
fit_result = fit.predict(hillas_dict, event.inst, tel_phi, tel_theta)
print(fit_result)
fit_result.alt.to(u.deg)
fit_result.az.to(u.deg)
fit_result.core_x.to(u.m)
assert fit_result.is_valid
return
def read(self, allowed_tels=None, requested_event=None,
use_event_id=False):
"""
Read the file using the appropriate method depending on the file origin
Parameters
----------
allowed_tels : list[int]
select only a subset of telescope, if None, all are read. This can
be used for example emulate the final CTA data format, where there
would be 1 telescope per file (whereas in current monte-carlo,
they are all interleaved into one file)
requested_event : int
Seek to a paricular event index
use_event_id : bool
If True ,'requested_event' now seeks for a particular event id
instead of index
Returns
-------
source : generator
A generator that can be iterated over to obtain events
"""
# Obtain relevent source
self.log.debug("Reading file...")
if self.max_events:
self.log.info("Max events being read = {}".format(self.max_events))
source = hessio_event_source(get_path(self.input_path),
max_events=self.max_events,
allowed_tels=allowed_tels,
requested_event=requested_event,
use_event_id=use_event_id)
self.log.debug("File reading complete")
return source
def test_camera_dl1_calibrator():
event = get_test_event()
telid = 11
calibrator = CameraDL1Calibrator(None, None)
calibrator.get_neighbours(event, telid)
assert (calibrator.neighbour_dict[telid][0][0] == 5)
calibrator.get_correction(event, telid)
assert_almost_equal(calibrator.correction_dict[telid][0], 2.154, 3)
dl0 = calibrator.obtain_dl0(event, telid)
assert_almost_equal(dl0[0, 0, 0], -0.091, 3)
calibrator.calibrate(event)
image = event.dl1.tel[telid].image
assert_almost_equal(image[0, 0], -4.431, 3)
filename = get_path('gamma_test.simtel.gz')
source = hessio_event_source(filename,
requested_event=409,
use_event_id=True)
calibrator.calibrate_source(source)
event = next(source)
assert_almost_equal(event.dl1.tel[21].image[0, 0], -3.410, 3)
def test_showermaxestimator(en=5 * u.TeV,
h_first_int=10 * u.km,
az=70 * u.deg):
estim = ShowerMaxEstimator(get_path("atmprof_paranal.dat"))
h_max = estim.find_shower_max_height(en, h_first_int, az)
assert h_max.unit.is_equivalent(u.m), "return value has not proper unit"
return h_max
def read(self, max_events=None):
"""
Read the file using the appropriate method depending on the file origin
Parameters
----------
max_events : int
Maximum number of events to read
Returns
-------
source : generator
A generator that can be iterated over to obtain events
"""
# Obtain relevent source
switch = {
'hessio':
lambda: hessio_event_source(get_path(self.input_path),
max_events=max_events),
'targetio':
lambda: oxpytools_source(self.input_path,
max_events=max_events),
}
try:
source = switch[self.origin]()
except KeyError:
log.exception("unknown file origin '{}'".format(self.origin))
raise
return source
def read(self, max_events=None):
"""
Read the file using the appropriate method depending on the file origin
Parameters
----------
max_events : int
Maximum number of events to read
Returns
-------
source : generator
A generator that can be iterated over to obtain events
"""
# Obtain relevent source
log.debug("[file] Reading file...")
if max_events:
log.info("[file] Max events being read = {}".format(max_events))
switch = {
'hessio':
lambda: hessio_event_source(get_path(self.input_path),
max_events=max_events),
'targetio':
lambda: oxpytools_source(self.input_path,
max_events=max_events),
}
try:
source = switch[self.origin]()
except KeyError:
log.exception("unknown file origin '{}'".format(self.origin))
raise
log.debug("[file] Reading complete")
return source
def get_array_layout(instrument_name):
"""
Returns the array layout for the given instrument as an
`astropy.table.Table` object.
"""
name = instrument_name.lower()
layoutfile = glob(get_path('{}_arraylayout.fits*'.format(name)))[0]
return load_array_layout_from_file(layoutfile)
def test_jsonToFits():
backup = sys.argv
full_config_name = get_path('config.json')
sys.argv = ['test_json_2_fits.py', '--config_file='+full_config_name]
app = MyApp()
app.initialize()
app.start()
app.jsonToFits()
sys.argv = backup
def test_jsonToFits():
backup = sys.argv
full_config_name = get_path('config.json')
sys.argv = ['test_json_2_fits.py', '--config_file=' + full_config_name]
app = MyApp()
app.initialize()
app.start()
assert (app.jsonToFits() == True)
sys.argv = backup
def init(self):
self.log.debug("--- SimTelArrayReader init {}---".format(self.filename))
try:
in_file = get_path(self.filename)
self.source = hessio_event_source(in_file,max_events=100)
self.log.debug('{} successfully opened {}'.format(self.filename,self.source))
except:
self.log.error('could not open ' + in_file)
return False
return True
def test_calibrate_source():
telid = 38
filename = get_path('gamma_test.simtel.gz')
source = hessio_event_source(filename)
c_source = calibrate_source(source, get_test_parameters())
for event in c_source:
if event.dl0.event_id == 408:
pe = event.dl1.tel[telid].calibrated_image
assert round(pe[0], 5) == 1.86419
break
def test_jsonToFits():
backup = sys.argv
full_config_name = get_path('config.json')
sys.argv = ['test_json_2_fits.py', '--config_file=' + full_config_name]
app = MyApp()
app.initialize()
app.start()
tmp = tempfile.NamedTemporaryFile()
app.jsonToFits(tmp)
sys.argv = backup
def event_id_list(self):
self.log.info("Retrieving list of event ids...")
if self._event_id_list:
pass
else:
self.log.info("Building new list of event ids...")
ids = hessio_get_list_event_ids(get_path(self.input_path),
max_events=self.max_events)
self._event_id_list = ids
self.log.info("List of event ids retrieved.")
return self._event_id_list
def test_traitlets_config_to_fits():
backup = sys.argv
full_config_name = get_path('config.json')
sys.argv = ['test_json_2_fits.py', '--config_file=' + full_config_name]
app = MyApp()
app.initialize()
app.start()
tmp = tempfile.NamedTemporaryFile()
app.traitlets_config_to_fits(tmp.name)
sys.argv = backup
def init(self):
self.log.debug("--- SimTelArrayReader init {}---".format(
self.filename))
try:
in_file = get_path(self.filename)
self.source = hessio_event_source(in_file, max_events=100)
self.log.debug('{} successfully opened {}'.format(
self.filename, self.source))
except:
self.log.error('could not open ' + in_file)
return False
return True
def get_camera_geometry(instrument_name, cam_id, recalc_neighbors=True):
"""Helper function to provide the camera geometry definition for a
camera by name.
Parameters
----------
instrument_name : {'hess'}
name of instrument
cam_id : int
identifier of camera, in case of multiple versions
recalc_neighbors : bool
if True, recalculate the neighbor pixel list, otherwise
use what is in the file
Returns
-------
a `CameraGeometry` object
Examples
--------
>>> geom_ct1 = get_camera_geometry( "hess", 1 )
>>> neighbors_pix_1 = geom_ct1.pix_id[geom_ct1.neighbors[1]]
"""
# let's assume the instrument name is encoded in the
# filename
name = instrument_name.lower()
geomfile = get_path('{}_camgeom.fits.gz'.format(name))
geom = _load_camera_table_from_file(cam_id, geomfile=geomfile)
neigh_list = geom['PIX_NEIG'].data
neigh = np.ma.masked_array(neigh_list, neigh_list < 0),
# put them all in units of M (conversions are automatic)
xx = u.Quantity(geom['PIX_POSX'], u.m)
yy = u.Quantity(geom['PIX_POSY'], u.m)
dd = u.Quantity(geom['PIX_DIAM'], u.m)
aa = u.Quantity(geom['PIX_AREA'], u.m ** 2)
if recalc_neighbors is True:
neigh = find_neighbor_pixels(xx.value, yy.value,
(dd.mean() + 0.01 * u.m).value)
return CameraGeometry(
cam_id=cam_id,
pix_id=np.array(geom['PIX_ID']),
pix_x=xx,
pix_y=yy,
pix_area=aa,
neighbors=neigh,
pix_type='hexagonal'
)
def read(self,
allowed_tels=None,
requested_event=None,
use_event_id=False):
"""
Read the file using the appropriate method depending on the file origin
Parameters
----------
allowed_tels : list[int]
select only a subset of telescope, if None, all are read. This can
be used for example emulate the final CTA data format, where there
would be 1 telescope per file (whereas in current monte-carlo,
they are all interleaved into one file)
requested_event : int
Seek to a paricular event index
use_event_id : bool
If True ,'requested_event' now seeks for a particular event id
instead of index
Returns
-------
source : generator
A generator that can be iterated over to obtain events
"""
# Obtain relevent source
log.debug("[file] Reading file...")
if self._max_events:
log.info("[file] Max events being read = {}".format(
self._max_events))
switch = {
'hessio':
lambda: hessio_event_source(get_path(self.input_path),
max_events=self._max_events,
allowed_tels=allowed_tels,
requested_event=requested_event,
use_event_id=use_event_id),
'targetio':
lambda: targetio_source(self.input_path,
max_events=self._max_events,
allowed_tels=allowed_tels,
requested_event=requested_event,
use_event_id=use_event_id),
}
try:
source = switch[self.origin]()
except KeyError:
log.exception("unknown file origin '{}'".format(self.origin))
raise
log.debug("[file] Reading complete")
return source
def init(self):
print("--- HessioReader init ---")
if self.configuration == None:
self.configuration = Configuration()
self.raw_data = self.configuration.get('source', section='HESSIO_READER')
try:
self.source = hessio_event_source(get_path(self.raw_data), max_events=9)
return True
except(RuntimeError):
print("could not open",self.raw_data, file=stderr)
return False
def read(self, allowed_tels=None, requested_event=None,
use_event_id=False):
"""
Read the file using the appropriate method depending on the file origin
Parameters
----------
allowed_tels : list[int]
select only a subset of telescope, if None, all are read. This can
be used for example emulate the final CTA data format, where there
would be 1 telescope per file (whereas in current monte-carlo,
they are all interleaved into one file)
requested_event : int
Seek to a paricular event index
use_event_id : bool
If True ,'requested_event' now seeks for a particular event id
instead of index
Returns
-------
source : generator
A generator that can be iterated over to obtain events
"""
# Obtain relevent source
log.debug("[file] Reading file...")
if self._max_events:
log.info("[file] Max events being read = {}"
.format(self._max_events))
switch = {
'hessio':
lambda: hessio_event_source(get_path(self.input_path),
max_events=self._max_events,
allowed_tels=allowed_tels,
requested_event=requested_event,
use_event_id=use_event_id),
'targetio':
lambda: targetio_source(self.input_path,
max_events=self._max_events,
allowed_tels=allowed_tels,
requested_event=requested_event,
use_event_id=use_event_id),
}
try:
source = switch[self.origin]()
except KeyError:
log.exception("unknown file origin '{}'".format(self.origin))
raise
log.debug("[file] Reading complete")
return source
def test_FitGammaHillas():
filename = get_path("gamma_test.simtel.gz")
fit = FitGammaHillas()
fit.setup_geometry(*load_hessio(filename),
phi=180 * u.deg,
theta=20 * u.deg)
tel_geom = {}
source = hessio_event_source(filename)
for event in source:
hillas_dict = {}
for tel_id in set(event.trig.tels_with_trigger) & set(
event.dl0.tels_with_data):
if tel_id not in tel_geom:
tel_geom[tel_id] = CameraGeometry.guess(
fit.cameras(tel_id)['PixX'].to(u.m),
fit.cameras(tel_id)['PixY'].to(u.m),
fit.telescopes['FL'][tel_id - 1] * u.m)
pmt_signal = event.dl0.tel[tel_id].adc_sums[0]
mask = tailcuts_clean(tel_geom[tel_id],
pmt_signal,
1,
picture_thresh=10.,
boundary_thresh=5.)
pmt_signal[mask is False] = 0
try:
moments, moms2 = hillas_parameters(
fit.cameras(tel_id)['PixX'],
fit.cameras(tel_id)['PixY'], pmt_signal)
hillas_dict[tel_id] = moments
except HillasParameterizationError as e:
print(e)
continue
if len(hillas_dict) < 2: continue
fit_result = fit.predict(hillas_dict)
print(fit_result)
assert fit_result
return
def init(self):
print("--- HessioReader init ---")
if self.configuration == None:
self.configuration = Configuration()
self.raw_data = self.configuration.get('source',
section='HESSIO_READER')
try:
self.source = hessio_event_source(get_path(self.raw_data),
max_events=9)
return True
except (RuntimeError):
print("could not open", self.raw_data, file=stderr)
return False
class EventFileReaderFactory(Factory):
name = "EventFileReaderFactory"
description = "Obtain EventFileReader based on file type"
subclasses = Factory.child_subclasses(EventFileReader)
subclass_names = [c.__name__ for c in subclasses]
reader = CaselessStrEnum(subclass_names,
None,
allow_none=True,
help='Event file reader to use. If None then '
'a reader will be chosen based on file '
'extension').tag(config=True)
# Product classes traits
# Would be nice to have these automatically set...!
input_path = Unicode(get_path('gamma_test.simtel.gz'),
allow_none=True,
help='Path to the input file containing '
'events.').tag(config=True)
max_events = Int(None,
allow_none=True,
help='Maximum number of events that will be read from'
'the file').tag(config=True)
def get_factory_name(self):
return self.name
def get_product_name(self):
if self.reader is not None:
return self.reader
else:
if self.input_path is None:
raise ValueError("Please specify an input_path for event file")
try:
for subclass in self.subclasses:
if subclass.check_file_compatibility(self.input_path):
return subclass.__name__
raise ValueError
except ValueError:
self.log.exception("Cannot find compatible EventFileReader "
"for: {}".format(self.input_path))
raise
def test_FitGammaHillas():
filename = get_path("gamma_test.simtel.gz")
fit = FitGammaHillas()
fit.setup_geometry(*load_hessio(filename), phi=180 * u.deg, theta=20 * u.deg)
tel_geom = {}
source = hessio_event_source(filename)
for event in source:
hillas_dict = {}
for tel_id in set(event.trig.tels_with_trigger) & set(event.dl0.tels_with_data):
if tel_id not in tel_geom:
tel_geom[tel_id] = CameraGeometry.guess(
fit.cameras(tel_id)["PixX"].to(u.m),
fit.cameras(tel_id)["PixY"].to(u.m),
fit.telescopes["FL"][tel_id - 1] * u.m,
)
pmt_signal = event.dl0.tel[tel_id].adc_sums[0]
mask = tailcuts_clean(tel_geom[tel_id], pmt_signal, 1, picture_thresh=10.0, boundary_thresh=5.0)
pmt_signal[mask is False] = 0
try:
moments, moms2 = hillas_parameters(fit.cameras(tel_id)["PixX"], fit.cameras(tel_id)["PixY"], pmt_signal)
hillas_dict[tel_id] = moments
except HillasParameterizationError as e:
print(e)
continue
if len(hillas_dict) < 2:
continue
fit_result = fit.predict(hillas_dict)
print(fit_result)
assert fit_result
return
def test_camera_dl1_calibrator():
event = get_test_event()
telid = 11
calibrator = CameraDL1Calibrator(None, None)
calibrator.get_neighbours(event, telid)
assert(calibrator.neighbour_dict[telid][0][0] == 5)
calibrator.get_correction(event, telid)
assert_almost_equal(calibrator.correction_dict[telid][0], 2.154, 3)
dl0 = calibrator.obtain_dl0(event, telid)
assert_almost_equal(dl0[0, 0, 0], -0.091, 3)
calibrator.calibrate(event)
image = event.dl1.tel[telid].image
assert_almost_equal(image[0, 0], -4.431, 3)
filename = get_path('gamma_test.simtel.gz')
source = hessio_event_source(filename, requested_event=409,
use_event_id=True)
calibrator.calibrate_source(source)
event = next(source)
assert_almost_equal(event.dl1.tel[21].image[0, 0], -3.410, 3)
def argparsing():
parser = argparse.ArgumentParser(
formatter_class=argparse.ArgumentDefaultsHelpFormatter)
parser.add_argument('-f',
'--file',
dest='input_paths',
default=[get_path('gamma_test.simtel.gz')],
nargs='*',
help='path to the input files to be combined for a '
'single charge resolution.')
parser.add_argument('-O',
'--origin',
dest='origin',
action='store',
choices=InputFile.origin_list(),
default='hessio',
help='origin of the file')
parser.add_argument('-t',
'--telescope',
dest='tel',
action='store',
type=int,
default=None,
nargs='*',
help='list of telecopes to be included. '
'Default = All')
parser.add_argument('-o',
'--output',
dest='output_path',
action='store',
default=None,
help='path to store a pdf output of the plots. '
'default = display on screen instead')
parser.add_argument('--comparison',
dest='comparison',
action='store',
default=None,
help='output path for a True Charge versus Measured'
'Charge graph. Default = do not plot graph')
parser.add_argument('-M',
'--maxpe',
dest='maxpe',
action='store',
default=None,
type=float,
help='maximum pe to calculate the charge resolution'
' up to. Default = maximum pe in file')
parser.add_argument('--maxpeplot',
dest='maxpeplot',
action='store',
default=None,
type=float,
help='maximum pe to plot up to. Default = maxpe')
parser.add_argument('-B',
'--binning',
dest='binning',
action='store',
default="log",
choices=['none', 'normal', 'log'],
help='binning of the charge resoltion graph: '
'"none" = no binning, "normal" = bin, '
'"log" = bin in log space.')
parser.add_argument('--normalx',
dest='normalx',
action='store_true',
default=False,
help='Use a normal x axis instead of the defualt log'
'axis')
parser.add_argument('--normaly',
dest='normaly',
action='store_true',
default=False,
help='Use a normal y axis instead of the defualt log'
'axis')
parser.add_argument('-E',
'--example',
dest='example',
action='store_true',
default=False,
help='print an example runcard')
parser.add_argument('-R',
'--runcard',
dest='runcard',
action='store',
default=None,
help='path to a runcard text file with arguments that '
'override command line arguments. This run card '
'can allow complex combinations of files and '
'calibrations to compare the charge resolution '
'against each other.')
parser.add_argument('--chargeres-names',
dest='chargeres_names',
default=['default'],
nargs='*',
help='chargres calculation to include in plot. '
'Only used for runcards.')
parser.add_argument('--calib-help',
dest='calib_help',
action='store_true',
default=False,
help='display the arguments used for the camera '
'calibration')
logger_detail = parser.add_mutually_exclusive_group()
logger_detail.add_argument('-q',
'--quiet',
dest='quiet',
action='store_true',
default=False,
help='Quiet mode')
logger_detail.add_argument('-v',
'--verbose',
dest='verbose',
action='store_true',
default=False,
help='Verbose mode')
logger_detail.add_argument('-d',
'--debug',
dest='debug',
action='store_true',
default=False,
help='Debug mode')
args, excess_args = parser.parse_known_args()
if args.quiet:
log.setLevel(40)
if args.verbose:
log.setLevel(20)
if args.debug:
log.setLevel(10)
if args.calib_help:
params, unknown_args = calibration_parameters(excess_args, args.origin,
args.calib_help)
if args.example:
print("""
# Each charge resolution block starts with [chargeres] and the names for
# this charge resolution.
# The options in each block are equivalent to the scripts help message.
# Options that seem to apply to plotting will only have effect in a
# plotting block.
[chargeres] test_file_local
#-f gamma_test.simtel.gz
-f ~/Software/outputs/sim_telarray/simtel_run4_gcts_hnsb.gz
-O hessio
--integrator 4
--integration-window 7 3
--integration-sigamp 2 4
--integration-lwt 0
--integration-calib_scale 1.05
--comparison ~/Downloads/test_file_local.pdf
# A second charge resolution block to also calculate the resolution with
# a different integrator so the two resolutions can be plotted against
# each other.
[chargeres] test_file_nei
#-f gamma_test.simtel.gz
-f ~/Software/outputs/sim_telarray/simtel_run4_gcts_hnsb.gz
-O hessio
--integrator 5
--integration-window 7 3
--integration-sigamp 2 4
--integration-lwt 0
--integration-calib_scale 1.05
--comparison ~/Downloads/test_file_nei.pdf
# A plotting block configures an output plot
[plot] normal_plot
--chargeres-names test_file_local test_file_nei
-o ~/Downloads/normal_plot.pdf
--binning normal
--normalx
--normaly
[plot] log_plot
--chargeres-names test_file_local test_file_nei
-o ~/Downloads/log_plot.pdf""")
exit()
chargeres_cmdlines = {}
plot_cmdlines = {}
if args.runcard is None:
name = args.chargeres_names[0]
chargeres_cmdlines[name] = sys.argv[1:]
plot_cmdlines[name] = sys.argv[1:]
chargeres_args = {name: args}
plot_args = {name: args}
else:
chargeres_args = {}
plot_args = {}
current = None
runcard = open(args.runcard)
for line in runcard:
if line.strip() and not line.startswith('#'):
argument = line.split()[0]
if argument == '[chargeres]':
name = line.split()[1:][0]
chargeres_cmdlines[name] = []
current = chargeres_cmdlines[name]
continue
elif argument == '[plot]':
name = line.split()[1:][0]
plot_cmdlines[name] = []
current = plot_cmdlines[name]
continue
current.extend(line.split())
# Temp fill for checks
for name, cmdline in chargeres_cmdlines.items():
chargeres_args[name], unknown = parser.parse_known_args(cmdline)
for name, cmdline in plot_cmdlines.items():
plot_args[name], unknown = parser.parse_known_args(cmdline)
# Check all chargeres_names exist
for plot_name, args in plot_args.items():
for name in args.chargeres_names:
try:
if name not in chargeres_args:
raise IndexError
except IndexError:
log.exception("[chargeres_names] For plot: {}, no chargeres "
"has the name: {}".format(plot_name, name))
raise
return parser, chargeres_cmdlines, plot_cmdlines
@author: zornju
Example of using the instrument module and reading data from a hessio, a
fits, and a sim_telarray-config file.
"""
from ctapipe.instrument import InstrumentDescription as ID,util_functions as uf
from ctapipe.instrument.telescope.camera import CameraDescription as CD
from ctapipe.utils.datasets import get_path
from astropy import units as u
import matplotlib.pyplot as plt
if __name__ == '__main__':
filename1 = get_path('PROD2_telconfig.fits.gz')
filename2 = get_path('gamma_test.simtel.gz')
filename3 ='/afs/ifh.de/group/cta/MC_Production/d20150828_GM/mrg/sim_telarray/cfg/CTA/CTA-ULTRA6-SCT.cfg'
#open both files:
item1 = uf.load(filename1)
item2 = uf.load(filename2)
item3 = uf.load(filename3)
#initialize the whole telescope, i.e. read all data from the files which
#concerns the whole telescope (including camera and optics)
instr1 = ID.Telescope.initialize(filename1,item1)
instr2 = ID.Telescope.initialize(filename2,item2)
instr3 = ID.Telescope.initialize(filename3,item3)
#The ID.telescope.initializ-function returns 3 objects as a list. The
def get_test_event():
filename = get_path(
'gamma_20deg_0deg_run31964___cta-prod2_desert-1640m-Aar.simtel.gz')
for event in hessio_event_source(filename):
if event.dl0.event_id == 409:
return event
def get_test_event():
filename = get_path(
'gamma_20deg_0deg_run31964___cta-prod2_desert-1640m-Aar.simtel.gz')
for event in hessio_event_source(filename):
if event.dl0.event_id == 409:
return event
Created on Thu Nov 19 11:43:50 2015
@author: zornju
Example of using the instrument module and reading data from a hessio, a
fits, and a sim_telarray-config file.
"""
from ctapipe.instrument import InstrumentDescription as ID
from ctapipe.utils.datasets import get_path
import matplotlib.pyplot as plt
import os
if __name__ == '__main__':
filename1 = get_path('PROD2_telconfig.fits.gz')
filename2 = get_path('gamma_test.simtel.gz')
filename3 = get_path('CTA-ULTRA6-SCT.cfg')
tel1,cam1,opt1 = ID.load(filename1)
tel2,cam2,opt2 = ID.load(filename2)
tel3,cam3,opt3 = ID.load(filename3)
tel4,cam4,opt4 = ID.load()
#To check which tables are in the dictionaries, do:
print('Print the name of the tables present in the dictionaries taken',\
'from the fits file:')
print(tel1.keys(),cam1.keys(),opt1.keys())
print('As you can see, in the fits file, only the first dictionary is',\
'filled with tables.')
print('------------------------------------------------------------------')
disp[-1].add_colorbar(label=" [{} ADC cts]".format(gain_label[i]))
plt.pause(0.1)
pp.savefig(fig)
pp.close()
if __name__ == '__main__':
# Declare and parse command line option
parser = argparse.ArgumentParser(
description='Tel_id, pixel id and number of event to compute.')
parser.add_argument('--f', dest='filename',
required=False,
default=get_path('gamma_test.simtel.gz'),
help='filename <MC file name>')
parser.add_argument('--d', dest='display', action='store_true',
required=False,help='display the camera events')
parser.add_argument('--tel', dest='tel_id', action='store',
required=False, default=None,
help='Telescope ID to display')
parser.add_argument('--pdf', dest='pdffilename', action='store',
required=False, default="./tmp.pdf",
help='PDF output filename')
args = parser.parse_args()
if args.display:
plt.show(block=False)
Created on Thu Nov 19 11:43:50 2015
@author: zornju
Example of using the instrument module and reading data from a hessio, a
fits, and a sim_telarray-config file.
"""
from ctapipe.instrument import InstrumentDescription as ID, CameraDescription as CD
from ctapipe.utils.datasets import get_path
from astropy import units as u
import matplotlib.pyplot as plt
if __name__ == '__main__':
filename1 = get_path('PROD2_telconfig.fits.gz')
filename2 = get_path('gamma_test.simtel.gz')
#filename3 = get_path('CTA-ULTRA6-SCT.cfg')
filename3 = '/afs/ifh.de/group/cta/MC_Production/d20150828_GM/mrg/sim_telarray/cfg/CTA/CTA-ULTRA6-SCT.cfg'
instr1 = ID.Telescope.from_file(filename1)
instr2 = ID.Telescope.from_file(filename2)
instr3 = ID.Telescope.from_file(filename3)
#The ID.telescope.initializ-function returns 3 objects as a list. The
#first entry of the list is the object containing the telescope
#configuration whithout the camera and optics, thus:
tel1 = instr1[0]
tel2 = instr2[0]
tel3 = instr3[0]
import numpy as np
from matplotlib import pyplot as plt
from os.path import realpath, join, dirname
from ctapipe.utils.datasets import get_path
from ctapipe.io.hessio import hessio_event_source
from ctapipe.instrument import CameraGeometry
from ctapipe.visualization import CameraDisplay
from targetpipe.io.pixels import checm_pixel_id
filepath = get_path("/Users/Jason/Software/outputs/sim_telarray/meudon_gamma/"
"simtel_runmeudon_gamma_30tel_30deg_19.gz")
# filepath = get_path(sys.argv[1])
source = hessio_event_source(filepath, max_events=1)
event = next(source)
tel = list(event.dl0.tels_with_data)[0]
pos_arr = np.array(event.inst.pixel_pos[tel])
n_pix = pos_arr.shape[1]
pos_arr = pos_arr[:, checm_pixel_id]
pos_arr[1] = -pos_arr[1]
fig = plt.figure(figsize=(13, 13))
ax = fig.add_subplot(111)
geom = CameraGeometry.guess(*event.inst.pixel_pos[tel],
event.inst.optical_foclen[tel])
camera = CameraDisplay(geom, ax=ax, image=np.zeros(2048))
for pix in range(n_pix):
def test_showermaxestimator(en=5*u.TeV, h_first_int=10*u.km, az=70*u.deg):
estim = ShowerMaxEstimator(get_path("atmprof_paranal.dat"))
h_max = estim.find_shower_max_height(en, h_first_int, az)
assert h_max.unit.is_equivalent(u.m), "return value has not proper unit"
return h_max
def test_convert_geometry():
filename = get_path("gamma_test.simtel.gz")
cam_geom = {}
source = hessio_event_source(filename)
# testing a few images just for the sake of being thorough
counter = 5
for event in source:
for tel_id in event.dl0.tels_with_data:
if tel_id not in cam_geom:
cam_geom[tel_id] = CameraGeometry.guess(
event.inst.pixel_pos[tel_id][0],
event.inst.pixel_pos[tel_id][1],
event.inst.optical_foclen[tel_id])
# we want to test conversion of hex to rectangular pixel grid
if cam_geom[tel_id].pix_type is not "hexagonal":
continue
print(tel_id, cam_geom[tel_id].pix_type)
pmt_signal = apply_mc_calibration(
#event.dl0.tel[tel_id].adc_samples[0],
event.dl0.tel[tel_id].adc_sums[0],
event.mc.tel[tel_id].dc_to_pe[0],
event.mc.tel[tel_id].pedestal[0])
new_geom, new_signal = convert_geometry_1d_to_2d(
cam_geom[tel_id], pmt_signal, cam_geom[tel_id].cam_id, add_rot=-2)
unrot_geom, unrot_signal = convert_geometry_back(
new_geom, new_signal, cam_geom[tel_id].cam_id,
event.inst.optical_foclen[tel_id], add_rot=4)
# if run as main, do some plotting
if __name__ == "__main__":
fig = plt.figure()
plt.style.use('seaborn-talk')
ax1 = fig.add_subplot(131)
disp1 = CameraDisplay(cam_geom[tel_id],
image=np.sum(pmt_signal, axis=1)
if pmt_signal.shape[-1] == 25 else pmt_signal,
ax=ax1)
disp1.cmap = plt.cm.hot
disp1.add_colorbar()
plt.title("original geometry")
ax2 = fig.add_subplot(132)
disp2 = CameraDisplay(new_geom,
image=np.sum(new_signal, axis=2)
if new_signal.shape[-1] == 25 else new_signal,
ax=ax2)
disp2.cmap = plt.cm.hot
disp2.add_colorbar()
plt.title("slanted geometry")
ax3 = fig.add_subplot(133)
disp3 = CameraDisplay(unrot_geom, image=np.sum(unrot_signal, axis=1)
if unrot_signal.shape[-1] == 25 else unrot_signal,
ax=ax3)
disp3.cmap = plt.cm.hot
disp3.add_colorbar()
plt.title("geometry converted back to hex")
plt.show()
# do some tailcuts cleaning
mask1 = tailcuts_clean(cam_geom[tel_id], pmt_signal, 1,
picture_thresh=10.,
boundary_thresh=5.)
mask2 = tailcuts_clean(unrot_geom, unrot_signal, 1,
picture_thresh=10.,
boundary_thresh=5.)
pmt_signal[mask1==False] = 0
unrot_signal[mask2==False] = 0
'''
testing back and forth conversion on hillas parameters... '''
try:
moments1 = hillas_parameters(cam_geom[tel_id].pix_x,
cam_geom[tel_id].pix_y,
pmt_signal)
moments2 = hillas_parameters(unrot_geom.pix_x,
unrot_geom.pix_y,
unrot_signal)
except (HillasParameterizationError, AssertionError) as e:
'''
we don't want this test to fail because the hillas code
threw an error '''
print(e)
counter -= 1
if counter < 0:
return
else:
continue
'''
test if the hillas parameters from the original geometry and the
forth-and-back rotated geometry are close '''
assert np.allclose(
[moments1.length.value, moments1.width.value,
moments1.phi.value],
[moments2.length.value, moments2.width.value,
moments2.phi.value],
rtol=1e-2, atol=1e-2)
counter -= 1
if counter < 0:
return
def main():
script = os.path.splitext(os.path.basename(__file__))[0]
log.info("[SCRIPT] {}".format(script))
parser = argparse.ArgumentParser(
formatter_class=argparse.ArgumentDefaultsHelpFormatter)
parser.add_argument('-f', '--file', dest='input_path', action='store',
default=get_path('gamma_test.simtel.gz'),
help='path to the input file')
parser.add_argument('-O', '--origin', dest='origin', action='store',
choices=InputFile.origin_list(),
default='hessio', help='origin of the file')
parser.add_argument('-o', '--output', dest='output_dir', action='store',
default=None,
help='path of the output directory to store the '
'images (default = input file directory)')
parser.add_argument('-e', '--event', dest='event_req', action='store',
default=0, type=int,
help='event index to plot (not id!)')
parser.add_argument('--id', dest='event_id_f', action='store_true',
default=False, help='-e will specify event_id instead '
'of index')
parser.add_argument('-t', '--telescope', dest='tel', action='store',
type=int, default=None, help='telecope to view')
parser.add_argument('-c', '--channel', dest='chan', action='store',
type=int, default=0,
help='channel to view (default = 0 (HG))')
parser.add_argument('--calib-help', dest='calib_help', action='store_true',
default=False,
help='display the arguments used for the camera '
'calibration')
logger_detail = parser.add_mutually_exclusive_group()
logger_detail.add_argument('-q', '--quiet', dest='quiet',
action='store_true', default=False,
help='Quiet mode')
logger_detail.add_argument('-v', '--verbose', dest='verbose',
action='store_true', default=False,
help='Verbose mode')
logger_detail.add_argument('-d', '--debug', dest='debug',
action='store_true', default=False,
help='Debug mode')
args, excess_args = parser.parse_known_args()
if args.quiet:
log.setLevel(40)
if args.verbose:
log.setLevel(20)
if args.debug:
log.setLevel(10)
telid = args.tel
chan = args.chan
log.debug("[file] Reading file")
input_file = InputFile(args.input_path, args.origin)
event = input_file.get_event(args.event_req, args.event_id_f)
# Print event/args values
log.info("[event_index] {}".format(event.count))
log.info("[event_id] {}".format(event.dl0.event_id))
log.info("[telescope] {}".format(telid))
log.info("[channel] {}".format(chan))
params, unknown_args = calibration_parameters(excess_args,
args.origin,
args.calib_help)
if unknown_args:
parser.print_help()
calibration_parameters(unknown_args, args.origin, True)
msg = 'unrecognized arguments: %s'
parser.error(msg % ' '.join(unknown_args))
# Create a dictionary to store any geoms in
geom = CameraGeometry.guess(*event.meta.pixel_pos[telid],
event.meta.optical_foclen[telid])
geom_dict = {telid: geom}
calibrated_event = calibrate_event(event, params, geom_dict)
# Select telescope
tels = list(calibrated_event.dl0.tels_with_data)
if telid is None or telid not in tels:
log.error("[event] please specify one of the following telescopes "
"for this event: {}".format(tels))
exit()
# Extract required images
data_ped = calibrated_event.dl1.tel[telid].pedestal_subtracted_adc[chan]
true_pe = calibrated_event.mc.tel[telid].photo_electrons
measured_pe = calibrated_event.dl1.tel[telid].pe_charge
max_time = np.unravel_index(np.argmax(data_ped), data_ped.shape)[1]
max_charges = np.max(data_ped, axis=1)
max_pixel = int(np.argmax(max_charges))
min_pixel = int(np.argmin(max_charges))
# Get Neighbours
max_pixel_nei = geom.neighbors[max_pixel]
min_pixel_nei = geom.neighbors[min_pixel]
# Get Windows
windows = calibrated_event.dl1.tel[telid].integration_window[chan]
length = np.sum(windows, axis=1)
start = np.argmax(windows, axis=1)
end = start + length - 1
# Draw figures
ax_max_nei = {}
ax_min_nei = {}
fig_waveforms = plt.figure(figsize=(18, 9))
fig_waveforms.subplots_adjust(hspace=.5)
fig_camera = plt.figure(figsize=(15, 12))
ax_max_pix = fig_waveforms.add_subplot(4, 2, 1)
ax_min_pix = fig_waveforms.add_subplot(4, 2, 2)
ax_max_nei[0] = fig_waveforms.add_subplot(4, 2, 3)
ax_min_nei[0] = fig_waveforms.add_subplot(4, 2, 4)
ax_max_nei[1] = fig_waveforms.add_subplot(4, 2, 5)
ax_min_nei[1] = fig_waveforms.add_subplot(4, 2, 6)
ax_max_nei[2] = fig_waveforms.add_subplot(4, 2, 7)
ax_min_nei[2] = fig_waveforms.add_subplot(4, 2, 8)
ax_img_nei = fig_camera.add_subplot(2, 2, 1)
ax_img_max = fig_camera.add_subplot(2, 2, 2)
ax_img_true = fig_camera.add_subplot(2, 2, 3)
ax_img_cal = fig_camera.add_subplot(2, 2, 4)
plotter = CameraPlotter(event, geom_dict)
# Draw max pixel traces
plotter.draw_waveform(data_ped[max_pixel], ax_max_pix)
ax_max_pix.set_title("(Max) Pixel: {}, "
"True: {}, "
"Measured = {:.3f}".format(max_pixel,
true_pe[max_pixel],
measured_pe[max_pixel]))
ax_max_pix.set_ylabel("Amplitude-Ped (ADC)")
max_ylim = ax_max_pix.get_ylim()
plotter.draw_waveform_positionline(start[max_pixel], ax_max_pix)
plotter.draw_waveform_positionline(end[max_pixel], ax_max_pix)
for i, ax in ax_max_nei.items():
if len(max_pixel_nei) > i:
pix = max_pixel_nei[i]
plotter.draw_waveform(data_ped[pix], ax)
ax.set_title("(Max Nei) Pixel: {}, "
"True: {}, "
"Measured = {:.3f}".format(pix, true_pe[pix],
measured_pe[pix]))
ax.set_ylabel("Amplitude-Ped (ADC)")
ax.set_ylim(max_ylim)
plotter.draw_waveform_positionline(start[pix], ax)
plotter.draw_waveform_positionline(end[pix], ax)
# Draw min pixel traces
plotter.draw_waveform(data_ped[min_pixel], ax_min_pix)
ax_min_pix.set_title("(Min) Pixel: {}, "
"True: {}, "
"Measured = {:.3f}".format(min_pixel,
true_pe[min_pixel],
measured_pe[min_pixel]))
ax_min_pix.set_ylabel("Amplitude-Ped (ADC)")
ax_min_pix.set_ylim(max_ylim)
plotter.draw_waveform_positionline(start[min_pixel], ax_min_pix)
plotter.draw_waveform_positionline(end[min_pixel], ax_min_pix)
for i, ax in ax_min_nei.items():
if len(min_pixel_nei) > i:
pix = min_pixel_nei[i]
plotter.draw_waveform(data_ped[pix], ax)
ax.set_title("(Min Nei) Pixel: {}, "
"True: {}, "
"Measured = {:.3f}".format(pix, true_pe[pix],
measured_pe[pix]))
ax.set_ylabel("Amplitude-Ped (ADC)")
ax.set_ylim(max_ylim)
plotter.draw_waveform_positionline(start[pix], ax)
plotter.draw_waveform_positionline(end[pix], ax)
# Draw cameras
nei_camera = np.zeros_like(max_charges, dtype=np.int)
nei_camera[min_pixel_nei] = 2
nei_camera[min_pixel] = 1
nei_camera[max_pixel_nei] = 3
nei_camera[max_pixel] = 4
camera = plotter.draw_camera(telid, nei_camera, ax_img_nei)
camera.cmap = plt.cm.viridis
ax_img_nei.set_title("Neighbour Map")
plotter.draw_camera_pixel_annotation(telid, max_pixel, min_pixel,
ax_img_nei)
camera = plotter.draw_camera(telid, data_ped[:, max_time], ax_img_max)
camera.add_colorbar(ax=ax_img_max, label="Amplitude-Ped (ADC)")
ax_img_max.set_title("Max Timeslice (T = {})".format(max_time))
plotter.draw_camera_pixel_annotation(telid, max_pixel, min_pixel,
ax_img_max)
camera = plotter.draw_camera(telid, true_pe, ax_img_true)
camera.add_colorbar(ax=ax_img_true, label="True Charge (Photo-electrons)")
ax_img_true.set_title("True Charge")
plotter.draw_camera_pixel_annotation(telid, max_pixel, min_pixel,
ax_img_true)
int_dict, inverted = integrator_dict()
integrator_name = '' if 'integrator' not in params else \
params['integrator']
camera = plotter.draw_camera(telid, measured_pe, ax_img_cal)
camera.add_colorbar(ax=ax_img_cal, label="Calib Charge (Photo-electrons)")
ax_img_cal.set_title("Charge (integrator={})".format(integrator_name))
plotter.draw_camera_pixel_annotation(telid, max_pixel, min_pixel,
ax_img_cal)
fig_waveforms.suptitle("Integrator = {}".format(integrator_name))
fig_camera.suptitle("Camera = {}".format(geom.cam_id))
waveform_output_name = "{}_e{}_t{}_c{}_integrator{}_waveform.pdf"\
.format(input_file.filename, event.count, telid, chan,
inverted[params['integrator']])
camera_output_name = "{}_e{}_t{}_c{}_integrator{}_camera.pdf"\
.format(input_file.filename, event.count, telid, chan,
inverted[params['integrator']])
output_dir = args.output_dir if args.output_dir is not None else \
input_file.output_directory
output_dir = os.path.join(output_dir, script)
if not os.path.exists(output_dir):
log.info("[output] Creating directory: {}".format(output_dir))
os.makedirs(output_dir)
waveform_output_path = os.path.join(output_dir, waveform_output_name)
log.info("[output] {}".format(waveform_output_path))
fig_waveforms.savefig(waveform_output_path, format='pdf',
bbox_inches='tight')
camera_output_path = os.path.join(output_dir, camera_output_name)
log.info("[output] {}".format(camera_output_path))
fig_camera.savefig(camera_output_path, format='pdf', bbox_inches='tight')
log.info("[COMPLETE]")
# -*- coding: utf-8 -*-
"""
Created on Wed Nov 18 17:37:19 2015
@author: zornju
"""
import ctapipe.instrument.InstrumentDescription as ID
from ctapipe.utils.datasets import get_path
filename1 = get_path('PROD2_telconfig.fits.gz')
filename2 = get_path('gamma_test.simtel.gz')
filename3 = get_path('CTA-ULTRA6-SCT.cfg')
def test_read_telescope_data():
instr1 = ID.Telescope.from_file(filename1)
instr2 = ID.Telescope.from_file(filename2)
instr3 = ID.Telescope.from_file(filename3)
instr4 = ID.Telescope.from_file()
tel1 = instr1[0]
tel2 = instr2[0]
tel3 = instr3[0]
tel4 = instr4[0]
assert(len(tel1.tel_id)>0)
assert(len(tel2.tel_id)>0)
assert(len(tel3.tel_id)>0)
assert(len(tel4.tel_id)>0)
opt1 = instr1[1]
opt2 = instr2[1]
opt3 = instr3[1]
opt4 = instr4[1]
from ctapipe.io.hessio import hessio_event_source
from ctapipe.utils.datasets import get_path
# input_filepath = "/Users/Jason/Software/outputs/sim_telarray/simtel_run4_gcts_hnsb.gz"
# input_filepath = "/Users/Jason/Software/outputs/sim_telarray/gamma_20deg_0deg_run10251___cta-prod3-merged_desert-2150m-Paranal-subarray-3_cone10.simtel.gz"
# input_filepath = "/Users/Jason/Software/outputs/sim_telarray/simtel_runmeudon_gamma_30tel_30deg_1.gz"
input_filepath = "/Users/Jason/Software/outputs/sim_telarray/simtel_runmeudon_proton_30tel_30deg_1.gz"
source = hessio_event_source(get_path(input_filepath), max_events=100)
event = next(source)
tels = list(event.dl0.tels_with_data)
Qt = event.mc.tel[tels[0]].photo_electrons
if Qt.any() > 0:
print("File has true pe")
else:
print("No true pe data")
def get_test_event():
filename = get_path('gamma_test.simtel.gz')
for event in hessio_event_source(filename):
if event.dl0.event_id == 409:
return event
from ctapipe.io.hessio import hessio_event_source
from ctapipe.utils.datasets import get_path
# input_filepath = "/Users/Jason/Software/outputs/sim_telarray/simtel_run4_gcts_hnsb.gz"
# input_filepath = "/Users/Jason/Software/outputs/sim_telarray/gamma_20deg_0deg_run10251___cta-prod3-merged_desert-2150m-Paranal-subarray-3_cone10.simtel.gz"
# input_filepath = "/Users/Jason/Software/outputs/sim_telarray/simtel_runmeudon_gamma_30tel_30deg_1.gz"
input_filepath = "/Users/Jason/Software/outputs/sim_telarray/simtel_runmeudon_proton_30tel_30deg_1.gz"
source = hessio_event_source(get_path(input_filepath), max_events=100)
event = next(source)
tels = list(event.dl0.tels_with_data)
Qt = event.mc.tel[tels[0]].photo_electrons
if Qt.any() > 0:
print("File has true pe")
else:
print("No true pe data")
class EventFileReader(Component):
"""
Parent class for specific FileReaders
Attributes
----------
input_path : str
directory : str
Automatically set from `input_path`.
filename : str
Name of the file without the extension.
Automatically set from `input_path`.
extension : str
Automatically set from `input_path`.
output_directory : str
Directory to save outputs for this file
"""
name = 'EventFileReader'
origin = None
input_path = Unicode(get_path('gamma_test.simtel.gz'),
allow_none=True,
help='Path to the input file containing '
'events.').tag(config=True)
max_events = Int(None,
allow_none=True,
help='Maximum number of events that will be read from'
'the file').tag(config=True)
def __init__(self, config, tool, **kwargs):
"""
Class to handle generic input files. Enables obtaining the "source"
generator, regardless of the type of file (either hessio or camera
file).
Parameters
----------
config : traitlets.loader.Config
Configuration specified by config file or cmdline arguments.
Used to set traitlet values.
Set to None if no configuration to pass.
tool : ctapipe.core.Tool
Tool executable that is calling this component.
Passes the correct logger to the component.
Set to None if no Tool to pass.
kwargs
"""
super().__init__(config=config, parent=tool, **kwargs)
if self.origin is None:
raise ValueError("Subclass of EventFileReader should specify "
"an origin")
self._num_events = None
self._event_id_list = []
if self.input_path is None:
raise ValueError("Please specify an input_path for event file")
self._init_path(self.input_path)
def _init_path(self, input_path):
if not exists(input_path):
raise FileNotFoundError(
"file path does not exist: '{}'".format(input_path))
self.input_path = input_path
self.directory = dirname(input_path)
self.filename = splitext(basename(input_path))[0]
self.extension = splitext(input_path)[1]
self.output_directory = join(self.directory, self.filename)
if self.log:
self.log.info("INPUT PATH = {}".format(self.input_path))
@observe('input_path')
def on_input_path_changed(self, change):
new = change['new']
try:
self.log.warning("Change: input_path={}".format(new))
self._num_events = None
self._event_id_list = []
self._init_path(new)
except AttributeError:
pass
@observe('origin')
def on_origin_changed(self, change):
new = change['new']
try:
self.log.warning("Change: origin={}".format(new))
except AttributeError:
pass
@observe('max_events')
def on_max_events_changed(self, change):
new = change['new']
try:
self.log.warning("Change: max_events={}".format(new))
self._num_events = None
self._event_id_list = []
except AttributeError:
pass
@property
@abstractmethod
def origin(self):
"""
Abstract property to be defined in child class.
Get the name for the origin of the file. E.g. 'hessio'.
Returns
-------
origin : str
"""
@staticmethod
@abstractmethod
def check_file_compatibility(file_path):
"""
Abstract method to be defined in child class.
Perform a set of checks to see if the input file is compatible
with this file reader.
Parameters
----------
file_path : str
File path to the event file.
Returns
-------
compatible : bool
True if file is compatible, False if it is incompatible
"""
@property
@abstractmethod
def num_events(self):
"""
Abstract property to be defined in child class.
Obtain the number of events from the file, store it inside
self._num_events, and return the value.
Returns
-------
self._num_events : int
"""
@property
@abstractmethod
def event_id_list(self):
"""
Abstract property to be defined in child class.
Obtain the number of events from the file, store it as
self._event_id_list, and return the value.
Returns
-------
self._event_id_list : list[self._num_events]
"""
@abstractmethod
def read(self,
allowed_tels=None,
requested_event=None,
use_event_id=False):
"""
Abstract method to be defined in child class.
Read the file using the processes required by the readers file-type.
Parameters
----------
allowed_tels : list[int]
select only a subset of telescope, if None, all are read. This can
be used for example emulate the final CTA data format, where there
would be 1 telescope per file (whereas in current monte-carlo,
they are all interleaved into one file)
requested_event : int
Seek to a paricular event index
use_event_id : bool
If True ,'requested_event' now seeks for a particular event id
instead of index
Returns
-------
source : generator
A generator that can be iterated over to obtain events
"""
def get_event(self, requested_event, use_event_id=False):
"""
Loop through events until the requested event is found
Parameters
----------
requested_event : int
Seek to a paricular event index
use_event_id : bool
If True ,'requested_event' now seeks for a particular event id
instead of index
Returns
-------
event : `ctapipe` event-container
"""
source = self.read(requested_event=requested_event,
use_event_id=use_event_id)
event = next(source)
return deepcopy(event)
def find_max_true_npe(self, telescopes=None):
"""
Loop through events to find the maximum true npe
Parameters
----------
telescopes : list
List of telecopes to include. If None, then all telescopes
are included.
Returns
-------
max_pe : int
"""
# TODO: Find an alternate method so this can be removed
self.log.info("Finding maximum true npe inside file...")
source = self.read()
max_pe = 0
for event in source:
tels = list(event.dl0.tels_with_data)
if telescopes is not None:
tels = []
for tel in telescopes:
if tel in event.dl0.tels_with_data:
tels.append(tel)
if event.count == 0:
# Check events have true charge included
try:
if np.all(event.mc.tel[tels[0]].photo_electron_image == 0):
raise KeyError
except KeyError:
self.log.exception('[chargeres] Source does not contain '
'true charge')
raise
for telid in tels:
pe = event.mc.tel[telid].photo_electron_image
this_max = np.max(pe)
if this_max > max_pe:
max_pe = this_max
self.log.info("Maximum true npe inside file = {}".format(max_pe))
return max_pe
def get_input():
print("============================================")
print("n or [enter] - go to Next event")
print("d - Display the event")
print("p - Print all event data")
print("i - event Info")
print("q - Quit")
return input("Choice: ")
if __name__ == '__main__':
if len(sys.argv) > 1:
filename = sys.argv.pop(1)
else:
filename = get_path("gamma_test.simtel.gz")
plt.style.use("ggplot")
plt.show(block=False)
# loop over events and display menu at each event:
source = hessio_event_source(filename, max_events=1000000)
for event in source:
print("EVENT_ID: ", event.dl0.event_id, "TELS: ",
event.dl0.tels_with_data)
while True:
response = get_input()
if response.startswith("d"):
from ctapipe.visualization import ArrayDisplay
from ctapipe.utils import datasets
from astropy.table import Table
from numpy import ones_like
import matplotlib.pylab as plt
if __name__ == '__main__':
plt.style.use("ggplot")
plt.figure(figsize=(9.5, 8.5))
# load up an example table that has the telescope positions and
# mirror areas in it:
arrayfile = datasets.get_path("PROD2_telconfig.fits.gz")
tels = Table.read(arrayfile, hdu="TELESCOPE_LEVEL0")
X = tels['TelX']
Y = tels['TelY']
A = tels['MirrorArea'] * 2 # exaggerate scale a bit
# display the array, and set the color value to 50
ad = ArrayDisplay(X, Y, A, title="Prod 2 Full Array")
ad.values = ones_like(X) * 50
# label them
for tel in tels:
name = "CT{tid}".format(tid=tel['TelID'])
plt.text(tel['TelX'], tel['TelY'], name, fontsize=8)
ad.axes.set_xlim(-1000, 1000)
def test_convert_geometry():
filename = get_path("gamma_test.simtel.gz")
cam_geom = {}
source = hessio_event_source(filename)
# testing a few images just for the sake of being thorough
counter = 5
for event in source:
for tel_id in event.dl0.tels_with_data:
if tel_id not in cam_geom:
cam_geom[tel_id] = CameraGeometry.guess(
event.inst.pixel_pos[tel_id][0],
event.inst.pixel_pos[tel_id][1],
event.inst.optical_foclen[tel_id])
# we want to test conversion of hex to rectangular pixel grid
if cam_geom[tel_id].pix_type is not "hexagonal":
continue
print(tel_id, cam_geom[tel_id].pix_type)
pmt_signal = apply_mc_calibration(
#event.dl0.tel[tel_id].adc_samples[0],
event.dl0.tel[tel_id].adc_sums[0],
event.mc.tel[tel_id].dc_to_pe[0],
event.mc.tel[tel_id].pedestal[0])
new_geom, new_signal = convert_geometry_1d_to_2d(
cam_geom[tel_id],
pmt_signal,
cam_geom[tel_id].cam_id,
add_rot=-2)
unrot_geom, unrot_signal = convert_geometry_back(
new_geom,
new_signal,
cam_geom[tel_id].cam_id,
event.inst.optical_foclen[tel_id],
add_rot=4)
# if run as main, do some plotting
if __name__ == "__main__":
fig = plt.figure()
plt.style.use('seaborn-talk')
ax1 = fig.add_subplot(131)
disp1 = CameraDisplay(
cam_geom[tel_id],
image=np.sum(pmt_signal, axis=1)
if pmt_signal.shape[-1] == 25 else pmt_signal,
ax=ax1)
disp1.cmap = plt.cm.hot
disp1.add_colorbar()
plt.title("original geometry")
ax2 = fig.add_subplot(132)
disp2 = CameraDisplay(
new_geom,
image=np.sum(new_signal, axis=2)
if new_signal.shape[-1] == 25 else new_signal,
ax=ax2)
disp2.cmap = plt.cm.hot
disp2.add_colorbar()
plt.title("slanted geometry")
ax3 = fig.add_subplot(133)
disp3 = CameraDisplay(
unrot_geom,
image=np.sum(unrot_signal, axis=1)
if unrot_signal.shape[-1] == 25 else unrot_signal,
ax=ax3)
disp3.cmap = plt.cm.hot
disp3.add_colorbar()
plt.title("geometry converted back to hex")
plt.show()
# do some tailcuts cleaning
mask1 = tailcuts_clean(cam_geom[tel_id],
pmt_signal,
1,
picture_thresh=10.,
boundary_thresh=5.)
mask2 = tailcuts_clean(unrot_geom,
unrot_signal,
1,
picture_thresh=10.,
boundary_thresh=5.)
pmt_signal[mask1 == False] = 0
unrot_signal[mask2 == False] = 0
'''
testing back and forth conversion on hillas parameters... '''
try:
moments1 = hillas_parameters(cam_geom[tel_id].pix_x,
cam_geom[tel_id].pix_y,
pmt_signal)
moments2 = hillas_parameters(unrot_geom.pix_x,
unrot_geom.pix_y, unrot_signal)
except (HillasParameterizationError, AssertionError) as e:
'''
we don't want this test to fail because the hillas code
threw an error '''
print(e)
counter -= 1
if counter < 0:
return
else:
continue
'''
test if the hillas parameters from the original geometry and the
forth-and-back rotated geometry are close '''
assert np.allclose([
moments1.length.value, moments1.width.value, moments1.phi.value
], [
moments2.length.value, moments2.width.value, moments2.phi.value
],
rtol=1e-2,
atol=1e-2)
counter -= 1
if counter < 0:
return
import numpy as np
from astropy.io import fits
from tqdm import tqdm
from ctapipe.utils.datasets import get_path
from ctapipe.io.hessio import hessio_event_source
import os.path
import math
import sys
filepath = get_path("/Users/Jason/Software/outputs/sim_telarray/meudon_gamma/simtel_runmeudon_gamma_30tel_30deg_19.gz")
# filepath = get_path(sys.argv[1])
events_per_byte = 16673/2150294565
est_events = os.path.getsize(filepath) * events_per_byte
source = hessio_event_source(filepath, max_events=1)
event = next(source)
tel = list(event.dl0.tels_with_data)[0]
pos_arr = np.array(event.inst.pixel_pos[tel])
n_pix = pos_arr.shape[1]
for pix in range(n_pix):
pos_x = pos_arr[0,pix]
pos_y = pos_arr[1,pix]
print("[{0:.5g}, {1:.5g}], # {2}".format(pos_x,-pos_y,pix))
def get_test_event():
filename = get_path('gamma_test.simtel.gz')
for event in hessio_event_source(filename):
if event.dl0.event_id == 409:
return event
def argparsing():
parser = argparse.ArgumentParser(
formatter_class=argparse.ArgumentDefaultsHelpFormatter)
parser.add_argument('-f', '--file', dest='input_paths',
default=[get_path('gamma_test.simtel.gz')], nargs='*',
help='path to the input files to be combined for a '
'single charge resolution.')
parser.add_argument('-O', '--origin', dest='origin', action='store',
choices=InputFile.origin_list(),
default='hessio', help='origin of the file')
parser.add_argument('-t', '--telescope', dest='tel', action='store',
type=int, default=None, nargs='*',
help='list of telecopes to be included. '
'Default = All')
parser.add_argument('-o', '--output', dest='output_path', action='store',
default=None,
help='path to store a pdf output of the plots. '
'default = display on screen instead')
parser.add_argument('--comparison', dest='comparison', action='store',
default=None,
help='output path for a True Charge versus Measured'
'Charge graph. Default = do not plot graph')
parser.add_argument('-M', '--maxpe', dest='maxpe', action='store',
default=None, type=float,
help='maximum pe to calculate the charge resolution'
' up to. Default = maximum pe in file')
parser.add_argument('--maxpeplot', dest='maxpeplot', action='store',
default=None, type=float,
help='maximum pe to plot up to. Default = maxpe')
parser.add_argument('-B', '--binning', dest='binning', action='store',
default="log", choices=['none', 'normal', 'log'],
help='binning of the charge resoltion graph: '
'"none" = no binning, "normal" = bin, '
'"log" = bin in log space.')
parser.add_argument('--normalx', dest='normalx', action='store_true',
default=False,
help='Use a normal x axis instead of the defualt log'
'axis')
parser.add_argument('--normaly', dest='normaly', action='store_true',
default=False,
help='Use a normal y axis instead of the defualt log'
'axis')
parser.add_argument('-E', '--example', dest='example', action='store_true',
default=False,
help='print an example runcard')
parser.add_argument('-R', '--runcard', dest='runcard', action='store',
default=None,
help='path to a runcard text file with arguments that '
'override command line arguments. This run card '
'can allow complex combinations of files and '
'calibrations to compare the charge resolution '
'against each other.')
parser.add_argument('--chargeres-names', dest='chargeres_names',
default=['default'], nargs='*',
help='chargres calculation to include in plot. '
'Only used for runcards.')
parser.add_argument('--calib-help', dest='calib_help', action='store_true',
default=False,
help='display the arguments used for the camera '
'calibration')
logger_detail = parser.add_mutually_exclusive_group()
logger_detail.add_argument('-q', '--quiet', dest='quiet',
action='store_true', default=False,
help='Quiet mode')
logger_detail.add_argument('-v', '--verbose', dest='verbose',
action='store_true', default=False,
help='Verbose mode')
logger_detail.add_argument('-d', '--debug', dest='debug',
action='store_true', default=False,
help='Debug mode')
args, excess_args = parser.parse_known_args()
if args.quiet:
log.setLevel(40)
if args.verbose:
log.setLevel(20)
if args.debug:
log.setLevel(10)
if args.calib_help:
params, unknown_args = calibration_parameters(excess_args,
args.origin,
args.calib_help)
if args.example:
print("""
# Each charge resolution block starts with [chargeres] and the names for
# this charge resolution.
# The options in each block are equivalent to the scripts help message.
# Options that seem to apply to plotting will only have effect in a
# plotting block.
[chargeres] test_file_local
#-f gamma_test.simtel.gz
-f ~/Software/outputs/sim_telarray/simtel_run4_gcts_hnsb.gz
-O hessio
--integrator 4
--integration-window 7 3
--integration-sigamp 2 4
--integration-lwt 0
--integration-calib_scale 1.05
--comparison ~/Downloads/test_file_local.pdf
# A second charge resolution block to also calculate the resolution with
# a different integrator so the two resolutions can be plotted against
# each other.
[chargeres] test_file_nei
#-f gamma_test.simtel.gz
-f ~/Software/outputs/sim_telarray/simtel_run4_gcts_hnsb.gz
-O hessio
--integrator 5
--integration-window 7 3
--integration-sigamp 2 4
--integration-lwt 0
--integration-calib_scale 1.05
--comparison ~/Downloads/test_file_nei.pdf
# A plotting block configures an output plot
[plot] normal_plot
--chargeres-names test_file_local test_file_nei
-o ~/Downloads/normal_plot.pdf
--binning normal
--normalx
--normaly
[plot] log_plot
--chargeres-names test_file_local test_file_nei
-o ~/Downloads/log_plot.pdf""")
exit()
chargeres_cmdlines = {}
plot_cmdlines = {}
if args.runcard is None:
name = args.chargeres_names[0]
chargeres_cmdlines[name] = sys.argv[1:]
plot_cmdlines[name] = sys.argv[1:]
chargeres_args = {name: args}
plot_args = {name: args}
else:
chargeres_args = {}
plot_args = {}
current = None
runcard = open(args.runcard)
for line in runcard:
if line.strip() and not line.startswith('#'):
argument = line.split()[0]
if argument == '[chargeres]':
name = line.split()[1:][0]
chargeres_cmdlines[name] = []
current = chargeres_cmdlines[name]
continue
elif argument == '[plot]':
name = line.split()[1:][0]
plot_cmdlines[name] = []
current = plot_cmdlines[name]
continue
current.extend(line.split())
# Temp fill for checks
for name, cmdline in chargeres_cmdlines.items():
chargeres_args[name], unknown = parser.parse_known_args(cmdline)
for name, cmdline in plot_cmdlines.items():
plot_args[name], unknown = parser.parse_known_args(cmdline)
# Check all chargeres_names exist
for plot_name, args in plot_args.items():
for name in args.chargeres_names:
try:
if name not in chargeres_args:
raise IndexError
except IndexError:
log.exception("[chargeres_names] For plot: {}, no chargeres "
"has the name: {}".format(plot_name, name))
raise
return parser, chargeres_cmdlines, plot_cmdlines
import numpy as np
from astropy.table import Table
from ctapipe.utils import datasets
from ctapipe.visualization import ArrayDisplay
from matplotlib import pyplot as plt
if __name__ == '__main__':
plt.style.use("ggplot")
plt.figure(figsize=(10, 8))
arrayfile = datasets.get_path("PROD2_telconfig.fits.gz")
tels = Table.read(arrayfile, hdu="TELESCOPE_LEVEL0")
adisp = ArrayDisplay(tels['TelX'], tels['TelY'], tels['MirrorArea'] * 2,
title='PROD2 telescopes', autoupdate=True)
plt.tight_layout()
values = np.zeros(len(tels))
# do a small animation to show various trigger patterns:
for ii in range(20):
# generate a random trigger pattern and integrated intensity:
ntrig = np.random.poisson(10)
trigmask = np.random.random_integers(len(tels) - 1, size=ntrig)
values[:] = 0
values[trigmask] = np.random.uniform(0, 100, size=ntrig)
def main():
script = os.path.splitext(os.path.basename(__file__))[0]
log.info("[SCRIPT] {}".format(script))
parser = argparse.ArgumentParser(
description='Display each event in the file')
parser.add_argument('-f', '--file', dest='input_path', action='store',
default=get_path('gamma_test.simtel.gz'),
help='path to the input file. '
'Default = gamma_test.simtel.gz')
parser.add_argument('-O', '--origin', dest='origin', action='store',
default='hessio',
help='origin of the file: {}. Default = hessio'
.format(origin_list()))
parser.add_argument('-D', dest='display', action='store_true',
default=False, help='display the camera events')
parser.add_argument('--pdf', dest='output_path', action='store',
default=None,
help='path to store a pdf output of the plots')
parser.add_argument('-t', '--telescope', dest='tel', action='store',
type=int, default=None, help='telecope to view. '
'Default = All')
calibration_arguments(parser)
logger_detail = parser.add_mutually_exclusive_group()
logger_detail.add_argument('-q', '--quiet', dest='quiet',
action='store_true', default=False,
help='Quiet mode')
logger_detail.add_argument('-v', '--verbose', dest='verbose',
action='store_true', default=False,
help='Verbose mode')
logger_detail.add_argument('-d', '--debug', dest='debug',
action='store_true', default=False,
help='Debug mode')
args = parser.parse_args()
params = calibration_parameters(args)
if args.quiet:
log.setLevel(40)
if args.verbose:
log.setLevel(20)
if args.debug:
log.setLevel(10)
log.debug("[file] Reading file")
input_file = InputFile(args.input_path, args.origin)
source = input_file.read()
# geom_dict is a dictionary of CameraGeometry, with keys of
# (num_pixels, focal_length), the parameters that are used to guess the
# geometry of the telescope. By using these keys, the geometry is
# calculated only once per telescope type as needed, reducing computation
# time.
# Creating a geom_dict at this point is optional, but is recommended, as
# the same geom_dict can then be shared between the calibration and
# CameraPlotter, again reducing computation time.
# The dictionary becomes filled as a result of a dictionary's mutable
# nature.
geom_dict = {}
# Calibrate events and fill geom_dict
calibrated_source = calibrate_source(source, params, geom_dict)
fig = plt.figure(figsize=(16, 7))
if args.display:
plt.show(block=False)
pp = PdfPages(args.output_path) if args.output_path is not None else None
for event in calibrated_source:
tels = list(event.dl0.tels_with_data)
if args.tel is None:
tel_loop = tels
else:
if args.tel not in tels:
continue
tel_loop = [args.tel]
log.debug(tels)
for tel_id in tel_loop:
display_telescope(event, tel_id, args.display, geom_dict, pp, fig)
if pp is not None:
pp.close()
log.info("[COMPLETE]")
def main():
script = os.path.splitext(os.path.basename(__file__))[0]
log.info("[SCRIPT] {}".format(script))
parser = argparse.ArgumentParser(
description='Display each event in the file')
parser.add_argument('-f',
'--file',
dest='input_path',
action='store',
default=get_path('gamma_test.simtel.gz'),
help='path to the input file. '
'Default = gamma_test.simtel.gz')
parser.add_argument('-O',
'--origin',
dest='origin',
action='store',
default='hessio',
help='origin of the file: {}. Default = hessio'.format(
InputFile.origin_list()))
parser.add_argument('-D',
dest='display',
action='store_true',
default=False,
help='display the camera events')
parser.add_argument('--pdf',
dest='output_path',
action='store',
default=None,
help='path to store a pdf output of the plots')
parser.add_argument('-t',
'--telescope',
dest='tel',
action='store',
type=int,
default=None,
help='telecope to view. '
'Default = All')
calibration_arguments(parser)
logger_detail = parser.add_mutually_exclusive_group()
logger_detail.add_argument('-q',
'--quiet',
dest='quiet',
action='store_true',
default=False,
help='Quiet mode')
logger_detail.add_argument('-v',
'--verbose',
dest='verbose',
action='store_true',
default=False,
help='Verbose mode')
logger_detail.add_argument('-d',
'--debug',
dest='debug',
action='store_true',
default=False,
help='Debug mode')
args = parser.parse_args()
print('DEBUG type(args) {}'.format(type(args)))
print('DEBUG args {}'.format(args))
params = calibration_parameters(args)
if args.quiet:
log.setLevel(40)
if args.verbose:
log.setLevel(20)
if args.debug:
log.setLevel(10)
log.debug("[file] Reading file")
input_file = InputFile(args.input_path, args.origin)
source = input_file.read()
# geom_dict is a dictionary of CameraGeometry, with keys of
# (num_pixels, focal_length), the parameters that are used to guess the
# geometry of the telescope. By using these keys, the geometry is
# calculated only once per telescope type as needed, reducing computation
# time.
# Creating a geom_dict at this point is optional, but is recommended, as
# the same geom_dict can then be shared between the calibration and
# CameraPlotter, again reducing computation time.
# The dictionary becomes filled as a result of a dictionary's mutable
# nature.
geom_dict = {}
# Calibrate events and fill geom_dict
calibrated_source = calibrate_source(source, params, geom_dict)
fig = plt.figure(figsize=(16, 7))
if args.display:
plt.show(block=False)
pp = PdfPages(args.output_path) if args.output_path is not None else None
for event in calibrated_source:
tels = list(event.dl0.tels_with_data)
if args.tel is None:
tel_loop = tels
else:
if args.tel not in tels:
continue
tel_loop = [args.tel]
log.debug(tels)
for tel_id in tel_loop:
display_telescope(event, tel_id, args.display, geom_dict, pp, fig)
if pp is not None:
pp.close()
log.info("[COMPLETE]")
else:
continue
else:
plt.pause(0.1)
elif ello == 'q':
return None
print("Total NEVT", nt)
if __name__ == '__main__':
# Declare and parse command line option
parser = argparse.ArgumentParser(
description='Tel_id, pixel id and number of event to compute.')
parser.add_argument('--f', dest='filename',
default=get_path('gamma_test.simtel.gz'),
required=False, help='filename <MC file name>')
parser.add_argument('--d', dest='display', action='store_true',
required=False, help='display the camera events')
args = parser.parse_args()
if args.display:
plt.show(block=False)
# Function description of camera_calibration options, given here
# Integrator: samples integration algorithm (equivalent to hessioxxx
# option --integration-sheme)
# -options: full_integration,
# simple_integration,
# global_peak_integration,
# local_peak_integration,
def main():
script = os.path.splitext(os.path.basename(__file__))[0]
log.info("[SCRIPT] {}".format(script))
parser = argparse.ArgumentParser(
formatter_class=argparse.ArgumentDefaultsHelpFormatter)
parser.add_argument('-f',
'--file',
dest='input_path',
action='store',
default=get_path('gamma_test.simtel.gz'),
help='path to the input file')
parser.add_argument('-O',
'--origin',
dest='origin',
action='store',
choices=InputFile.origin_list(),
default='hessio',
help='origin of the file')
parser.add_argument('-o',
'--output',
dest='output_dir',
action='store',
default=None,
help='path of the output directory to store the '
'images (default = input file directory)')
parser.add_argument('-e',
'--event',
dest='event_req',
action='store',
default=0,
type=int,
help='event index to plot (not id!)')
parser.add_argument('--id',
dest='event_id_f',
action='store_true',
default=False,
help='-e will specify event_id instead '
'of index')
parser.add_argument('-t',
'--telescope',
dest='tel',
action='store',
type=int,
default=None,
help='telecope to view')
parser.add_argument('-c',
'--channel',
dest='chan',
action='store',
type=int,
default=0,
help='channel to view (default = 0 (HG))')
parser.add_argument('--calib-help',
dest='calib_help',
action='store_true',
default=False,
help='display the arguments used for the camera '
'calibration')
logger_detail = parser.add_mutually_exclusive_group()
logger_detail.add_argument('-q',
'--quiet',
dest='quiet',
action='store_true',
default=False,
help='Quiet mode')
logger_detail.add_argument('-v',
'--verbose',
dest='verbose',
action='store_true',
default=False,
help='Verbose mode')
logger_detail.add_argument('-d',
'--debug',
dest='debug',
action='store_true',
default=False,
help='Debug mode')
args, excess_args = parser.parse_known_args()
if args.quiet:
log.setLevel(40)
if args.verbose:
log.setLevel(20)
if args.debug:
log.setLevel(10)
telid = args.tel
chan = args.chan
log.debug("[file] Reading file")
input_file = InputFile(args.input_path, args.origin)
event = input_file.get_event(args.event_req, args.event_id_f)
# Print event/args values
log.info("[event_index] {}".format(event.count))
log.info("[event_id] {}".format(event.dl0.event_id))
log.info("[telescope] {}".format(telid))
log.info("[channel] {}".format(chan))
params, unknown_args = calibration_parameters(excess_args, args.origin,
args.calib_help)
if unknown_args:
parser.print_help()
calibration_parameters(unknown_args, args.origin, True)
msg = 'unrecognized arguments: %s'
parser.error(msg % ' '.join(unknown_args))
# Create a dictionary to store any geoms in
geom = CameraGeometry.guess(*event.meta.pixel_pos[telid],
event.meta.optical_foclen[telid])
geom_dict = {telid: geom}
calibrated_event = calibrate_event(event, params, geom_dict)
# Select telescope
tels = list(calibrated_event.dl0.tels_with_data)
if telid is None or telid not in tels:
log.error("[event] please specify one of the following telescopes "
"for this event: {}".format(tels))
exit()
# Extract required images
data_ped = calibrated_event.dl1.tel[telid].pedestal_subtracted_adc[chan]
true_pe = calibrated_event.mc.tel[telid].photo_electrons
measured_pe = calibrated_event.dl1.tel[telid].pe_charge
max_time = np.unravel_index(np.argmax(data_ped), data_ped.shape)[1]
max_charges = np.max(data_ped, axis=1)
max_pixel = int(np.argmax(max_charges))
min_pixel = int(np.argmin(max_charges))
# Get Neighbours
max_pixel_nei = geom.neighbors[max_pixel]
min_pixel_nei = geom.neighbors[min_pixel]
# Get Windows
windows = calibrated_event.dl1.tel[telid].integration_window[chan]
length = np.sum(windows, axis=1)
start = np.argmax(windows, axis=1)
end = start + length - 1
# Draw figures
ax_max_nei = {}
ax_min_nei = {}
fig_waveforms = plt.figure(figsize=(18, 9))
fig_waveforms.subplots_adjust(hspace=.5)
fig_camera = plt.figure(figsize=(15, 12))
ax_max_pix = fig_waveforms.add_subplot(4, 2, 1)
ax_min_pix = fig_waveforms.add_subplot(4, 2, 2)
ax_max_nei[0] = fig_waveforms.add_subplot(4, 2, 3)
ax_min_nei[0] = fig_waveforms.add_subplot(4, 2, 4)
ax_max_nei[1] = fig_waveforms.add_subplot(4, 2, 5)
ax_min_nei[1] = fig_waveforms.add_subplot(4, 2, 6)
ax_max_nei[2] = fig_waveforms.add_subplot(4, 2, 7)
ax_min_nei[2] = fig_waveforms.add_subplot(4, 2, 8)
ax_img_nei = fig_camera.add_subplot(2, 2, 1)
ax_img_max = fig_camera.add_subplot(2, 2, 2)
ax_img_true = fig_camera.add_subplot(2, 2, 3)
ax_img_cal = fig_camera.add_subplot(2, 2, 4)
plotter = CameraPlotter(event, geom_dict)
# Draw max pixel traces
plotter.draw_waveform(data_ped[max_pixel], ax_max_pix)
ax_max_pix.set_title("(Max) Pixel: {}, "
"True: {}, "
"Measured = {:.3f}".format(max_pixel,
true_pe[max_pixel],
measured_pe[max_pixel]))
ax_max_pix.set_ylabel("Amplitude-Ped (ADC)")
max_ylim = ax_max_pix.get_ylim()
plotter.draw_waveform_positionline(start[max_pixel], ax_max_pix)
plotter.draw_waveform_positionline(end[max_pixel], ax_max_pix)
for i, ax in ax_max_nei.items():
if len(max_pixel_nei) > i:
pix = max_pixel_nei[i]
plotter.draw_waveform(data_ped[pix], ax)
ax.set_title("(Max Nei) Pixel: {}, "
"True: {}, "
"Measured = {:.3f}".format(pix, true_pe[pix],
measured_pe[pix]))
ax.set_ylabel("Amplitude-Ped (ADC)")
ax.set_ylim(max_ylim)
plotter.draw_waveform_positionline(start[pix], ax)
plotter.draw_waveform_positionline(end[pix], ax)
# Draw min pixel traces
plotter.draw_waveform(data_ped[min_pixel], ax_min_pix)
ax_min_pix.set_title("(Min) Pixel: {}, "
"True: {}, "
"Measured = {:.3f}".format(min_pixel,
true_pe[min_pixel],
measured_pe[min_pixel]))
ax_min_pix.set_ylabel("Amplitude-Ped (ADC)")
ax_min_pix.set_ylim(max_ylim)
plotter.draw_waveform_positionline(start[min_pixel], ax_min_pix)
plotter.draw_waveform_positionline(end[min_pixel], ax_min_pix)
for i, ax in ax_min_nei.items():
if len(min_pixel_nei) > i:
pix = min_pixel_nei[i]
plotter.draw_waveform(data_ped[pix], ax)
ax.set_title("(Min Nei) Pixel: {}, "
"True: {}, "
"Measured = {:.3f}".format(pix, true_pe[pix],
measured_pe[pix]))
ax.set_ylabel("Amplitude-Ped (ADC)")
ax.set_ylim(max_ylim)
plotter.draw_waveform_positionline(start[pix], ax)
plotter.draw_waveform_positionline(end[pix], ax)
# Draw cameras
nei_camera = np.zeros_like(max_charges, dtype=np.int)
nei_camera[min_pixel_nei] = 2
nei_camera[min_pixel] = 1
nei_camera[max_pixel_nei] = 3
nei_camera[max_pixel] = 4
camera = plotter.draw_camera(telid, nei_camera, ax_img_nei)
camera.cmap = plt.cm.viridis
ax_img_nei.set_title("Neighbour Map")
plotter.draw_camera_pixel_annotation(telid, max_pixel, min_pixel,
ax_img_nei)
camera = plotter.draw_camera(telid, data_ped[:, max_time], ax_img_max)
camera.add_colorbar(ax=ax_img_max, label="Amplitude-Ped (ADC)")
ax_img_max.set_title("Max Timeslice (T = {})".format(max_time))
plotter.draw_camera_pixel_annotation(telid, max_pixel, min_pixel,
ax_img_max)
camera = plotter.draw_camera(telid, true_pe, ax_img_true)
camera.add_colorbar(ax=ax_img_true, label="True Charge (Photo-electrons)")
ax_img_true.set_title("True Charge")
plotter.draw_camera_pixel_annotation(telid, max_pixel, min_pixel,
ax_img_true)
int_dict, inverted = integrator_dict()
integrator_name = '' if 'integrator' not in params else \
params['integrator']
camera = plotter.draw_camera(telid, measured_pe, ax_img_cal)
camera.add_colorbar(ax=ax_img_cal, label="Calib Charge (Photo-electrons)")
ax_img_cal.set_title("Charge (integrator={})".format(integrator_name))
plotter.draw_camera_pixel_annotation(telid, max_pixel, min_pixel,
ax_img_cal)
fig_waveforms.suptitle("Integrator = {}".format(integrator_name))
fig_camera.suptitle("Camera = {}".format(geom.cam_id))
waveform_output_name = "{}_e{}_t{}_c{}_integrator{}_waveform.pdf"\
.format(input_file.filename, event.count, telid, chan,
inverted[params['integrator']])
camera_output_name = "{}_e{}_t{}_c{}_integrator{}_camera.pdf"\
.format(input_file.filename, event.count, telid, chan,
inverted[params['integrator']])
output_dir = args.output_dir if args.output_dir is not None else \
input_file.output_directory
output_dir = os.path.join(output_dir, script)
if not os.path.exists(output_dir):
log.info("[output] Creating directory: {}".format(output_dir))
os.makedirs(output_dir)
waveform_output_path = os.path.join(output_dir, waveform_output_name)
log.info("[output] {}".format(waveform_output_path))
fig_waveforms.savefig(waveform_output_path,
format='pdf',
bbox_inches='tight')
camera_output_path = os.path.join(output_dir, camera_output_name)
log.info("[output] {}".format(camera_output_path))
fig_camera.savefig(camera_output_path, format='pdf', bbox_inches='tight')
log.info("[COMPLETE]")
from astropy.io import fits
from scipy.interpolate import RegularGridInterpolator
from ctapipe.utils.datasets import get_path
from ctapipe.utils import Histogram
if __name__ == '__main__':
# Load an example datacube (an energy table generated for a
# small subset of HESS simulations) to use as a lookup table. Here
# we will use the Histogram class, which automatically loads both
# the data cube and creates arrays for the coordinates of each
# axis.
testfile = get_path("hess_ct001_energylut.fits.gz")
energy_hdu = fits.open(testfile)['MEAN']
energy_table = Histogram(initFromFITS=energy_hdu)
print(energy_table)
# Now, construct an interpolator that we can use to get values at
# any point:
centers = [energy_table.binCenters(ii) for ii in range(energy_table.ndims)]
energy_lookup = RegularGridInterpolator(centers, energy_table.hist,
bounds_error=False,fill_value=-100)
# energy_lookup is now just a continuous function of log(SIZE),
# DISTANCE in m. We can now plot some curves from the
# interpolator.
#
# Note that the LUT we used is does not have very high statistics,
def get_test_event():
filename = get_path('gamma_test.simtel.gz')
source = hessio_event_source(filename, requested_event=409,
use_event_id=True)
event = next(source)
return event
def initialize(self, argv=None):
self.log.info("Initializing the calibration pipeline...")
# Declare and parse command line option
parser = argparse.ArgumentParser(
description='Display each event in the file')
parser.add_argument('-f', '--file', dest='input_path',
action='store',
default=get_path('gamma_test.simtel.gz'),
help='path to the input file. '
' Default = gamma_test.simtel.gz')
parser.add_argument('-O', '--origin', dest='origin',
action='store',
default='hessio',
help='origin of the file: {}. '
'Default = hessio'
.format(origin_list()))
parser.add_argument('-D', dest='display', action='store_true',
default=False,
help='display the camera events')
parser.add_argument('--pdf', dest='output_path', action='store',
default=None,
help='path to store a pdf output of the plots')
parser.add_argument('-t', '--telescope', dest='tel',
action='store',
type=int, default=None,
help='telecope to view. Default = All')
calibration_arguments(parser)
logger_detail = parser.add_mutually_exclusive_group()
logger_detail.add_argument('-q', '--quiet', dest='quiet',
action='store_true', default=False,
help='Quiet mode')
logger_detail.add_argument('-v', '--verbose', dest='verbose',
action='store_true', default=False,
help='Verbose mode')
logger_detail.add_argument('-d', '--debug', dest='debug',
action='store_true', default=False,
help='Debug mode')
self.args = parser.parse_args()
self.params = calibration_parameters(self.args)
if self.args.quiet:
self.log.setLevel(40)
if self.args.verbose:
self.log.setLevel(20)
if self.args.debug:
self.log.setLevel(10)
self.log.debug("[file] Reading file")
input_file = InputFile(self.args.input_path, self.args.origin)
self.source = input_file.read()
# geom_dict is a dictionary of CameraGeometry, with keys of
# (num_pixels, focal_length), the parameters that are used to guess the
# geometry of the telescope. By using these keys, the geometry is
# calculated only once per telescope type as needed, reducing
# computation time.
# Creating a geom_dict at this point is optional, but is recommended,
# as the same geom_dict can then be shared between the calibration and
# CameraPlotter, again reducing computation time.
# The dictionary becomes filled as a result of a dictionary's mutable
# nature.def display_telescope(event, tel_id, display,
# geom_dict, pp, fig):
self.geom_dict = {}
