def main():
""" Fitting for pmt response to ~spe led pulses """
file_name = sys.argv[1]
func_name = sys.argv[2]
min_stat = 0
fix_ped = False
if len(sys.argv) > 3:
use_db_gain_seeds = True if 'true' in sys.argv[3] else False
min_stat = int(sys.argv[4])
dats = tb.open_file(file_name, 'r')
bins = np.array(dats.root.HIST.pmt_dark_bins)
specsD = np.array(dats.root.HIST.pmt_dark).sum(axis=0)
specsL = np.array(dats.root.HIST.pmt_spe).sum(axis=0)
run_no = get_run_number(dats)
sensor_type = SensorType.SIPM if 'sipm' in file_name else SensorType.PMT
ffuncs = {
'ngau': speR.poisson_scaled_gaussians(n_gaussians=7),
'intgau': speR.poisson_scaled_gaussians(min_integral=100),
'dfunc': partial(speR.scaled_dark_pedestal, min_integral=100),
'conv': partial(speR.dark_convolution, min_integral=100)
}
pOrders = {
'ngau': 'norm err poismu err ped err pedSig err gain err 1peSig err',
'intgau': 'norm err poismu err ped err pedSig err gain err 1peSig err',
'dfunc': 'norm err poismu err gain err 1peSig err',
'conv': 'norm err poismu err gain err 1peSig err'
}
fnam = {
'ngau': 'poisson_scaled_gaussians_ngau',
'intgau': 'poisson_scaled_gaussians_min',
'dfunc': 'scaled_dark_pedestal',
'conv': 'dark_convolution'
}
## pOut = open('pmtCalParOut_R'+file_name[-7:-3]+'_F'+func_name+'.dat', 'w')
posRunNo = file_name.find('R')
pOut = tb.open_file(
'pmtCalParOut_R' + file_name[posRunNo + 1:posRunNo + 5] + '_F' +
func_name + '.h5', 'w')
param_writer = pIO.channel_param_writer(pOut,
sensor_type='pmt',
func_name=fnam[func_name],
param_names=pIO.generic_params)
test_names = ['normalization', 'Pedestal', 'Pedestal_sig']
pTest_writer = pIO.channel_param_writer(pOut,
sensor_type='pmt',
func_name='Pedestal_gaussian',
param_names=test_names,
covariance=(3, 3))
outDict = {}
testDict = {}
for ich, (dspec, lspec) in enumerate(zip(specsD, specsL)):
b1 = 0
b2 = len(dspec)
if min_stat != 0:
valid_bins = np.argwhere(lspec >= min_stat)
b1 = valid_bins[0][0]
b2 = valid_bins[-1][0]
outDict[pIO.generic_params[-2]] = (bins[b1],
bins[min(len(bins) - 1, b2)])
## Fit the dark spectrum with a Gaussian (not really necessary for the conv option)
gb0 = [(0, -100, 0), (1e99, 100, 10000)]
av, rms = weighted_av_std(bins[dspec > 100], dspec[dspec > 100])
sd0 = (dspec.sum(), av, rms)
errs = np.sqrt(dspec[dspec > 100])
errs[errs == 0] = 0.0001
gfitRes = fitf.fit(fitf.gauss,
bins[dspec > 100],
dspec[dspec > 100],
sd0,
sigma=errs,
bounds=gb0)
outDict[pIO.generic_params[2]] = (gfitRes.values[1], gfitRes.errors[1])
outDict[pIO.generic_params[3]] = (gfitRes.values[2], gfitRes.errors[2])
testDict[test_names[0]] = (gfitRes.values[0], gfitRes.errors[0])
testDict[test_names[1]] = (gfitRes.values[1], gfitRes.errors[1])
testDict[test_names[2]] = (gfitRes.values[2], gfitRes.errors[2])
testDict["covariance"] = gfitRes.cov
pTest_writer(ich, testDict)
## Scale just in case we lost a different amount of integrals in dark and led
scale = lspec.sum() / dspec.sum()
print('Scale check: ', scale)
if 'dfunc' in func_name:
respF = ffuncs[func_name](dark_spectrum=dspec[b1:b2] * scale,
pedestal_mean=gfitRes.values[1],
pedestal_sigma=gfitRes.values[2])
elif 'conv' in func_name:
respF = ffuncs[func_name](dark_spectrum=dspec[b1:b2] * scale,
bins=bins[b1:b2])
elif fix_ped:
respF = partial(ffuncs[func_name],
pedestal_mean=gfitRes.values[1],
pedestal_sigma=gfitRes.values[2])
else:
respF = ffuncs[func_name]
ped_vals = np.array(
[gfitRes.values[0] * scale, gfitRes.values[1], gfitRes.values[2]])
dark = dspec[b1:b2]
scaler_func = dark_scaler(dark[bins[b1:b2] < 0])
seeds, bounds = seeds_and_bounds(sensor_type,
run_no,
ich,
scaler_func,
bins[b1:b2],
lspec[b1:b2],
ped_vals,
'new',
gfitRes.errors,
func='dfunc',
use_db_gain_seeds=True)
## The fit
errs = np.sqrt(lspec[b1:b2])
if not 'gau' in func_name:
errs = np.sqrt(errs**2 + np.exp(-2 * seeds[1]) * dspec[b1:b2])
errs[errs == 0] = 1 #0.001
rfit = fitf.fit(respF,
bins[b1:b2],
lspec[b1:b2],
seeds,
sigma=errs,
bounds=bounds)
## plot the result
plt.errorbar(bins,
lspec,
xerr=0.5 * np.diff(bins)[0],
yerr=np.sqrt(lspec),
fmt='b.')
plt.plot(bins[b1:b2], rfit.fn(bins[b1:b2]), 'r')
plt.plot(bins[b1:b2], respF(bins[b1:b2], *seeds), 'g')
plt.title('Spe response fit to channel ' + str(ich))
plt.xlabel('ADC')
plt.ylabel('AU')
outDict[pIO.generic_params[0]] = (rfit.values[0], rfit.errors[0])
outDict[pIO.generic_params[1]] = (rfit.values[1], rfit.errors[1])
gIndx = 2
if 'gau' in func_name:
gIndx = 4
outDict[pIO.generic_params[4]] = (rfit.values[gIndx],
rfit.errors[gIndx])
outDict[pIO.generic_params[5]] = (rfit.values[gIndx + 1],
rfit.errors[gIndx + 1])
outDict[pIO.generic_params[-1]] = (respF.n_gaussians, rfit.chi2)
param_writer(ich, outDict)
plt.show(block=False)
next_plot = input('press enter to move to next fit')
if 's' in next_plot:
plt.savefig('FitPMTCh' + str(ich) + '.png')
plt.clf()
plt.close()
pOut.close()
def fit_dataset(dataF=None, funcName=None, minStat=None, limitPed=None):
""" Check new fit function on SiPM spectra """
global useSavedSeeds, GainSeeds, SigSeeds
file_name = dataF
func_name = funcName
min_stat = minStat
limit_ped = limitPed
optimise = True
if not file_name:
optimise = False
file_name = sys.argv[1]
func_name = sys.argv[2]
min_stat = 0
limit_ped = 10000.
if len(sys.argv) > 3:
useSavedSeeds = True if 'true' in sys.argv[3] else False
min_stat = int(sys.argv[4])
limit_ped = int(sys.argv[5])
run_no = file_name[file_name.find('R')+1:file_name.find('R')+5]
run_no = int(run_no)
chNos = DB.DataSiPM(run_no).SensorID.values
if useSavedSeeds:
dodgy = DB.DataSiPM(run_no).index[DB.DataSiPM(run_no).Active==0].values
GainSeeds = DB.DataSiPM(run_no).adc_to_pes.values
SigSeeds = DB.DataSiPM(run_no).Sigma.values
## Give generic values to previously dead or dodgy channels
GainSeeds[dodgy] = 15
SigSeeds[dodgy] = 2
sipmIn = tb.open_file(file_name, 'r')
## Bins are the same for dark and light, just use light for now
bins = np.array(sipmIn.root.HIST.sipm_spe_bins)
## LED correlated and anticorrelated spectra:
specsL = np.array(sipmIn.root.HIST.sipm_spe).sum(axis=0)
specsD = np.array(sipmIn.root.HIST.sipm_dark).sum(axis=0)
ffuncs = {'ngau':speR.poisson_scaled_gaussians(n_gaussians=7),
'intgau':speR.poisson_scaled_gaussians(min_integral=100),
'dfunc':partial(speR.scaled_dark_pedestal, min_integral=100),
'conv':partial(speR.dark_convolution, min_integral=100)}
## Loop over the specra:
outData = []
outDict = {}
llchans = []
if not optimise:
fnam = {'ngau':'poisson_scaled_gaussians_ngau', 'intgau':'poisson_scaled_gaussians_min', 'dfunc':'scaled_dark_pedestal', 'conv':'dark_convolution'}
pOut = tb.open_file('sipmCalParOut_R'+str(run_no)+'_F'+func_name+'.h5', 'w')
param_writer = pIO.channel_param_writer(pOut,
sensor_type='sipm',
func_name=fnam[func_name],
param_names=pIO.generic_params)
## Extra protection since 3065 is weird
knownDead = [ 3056, 11009, 12058, 14010, 22028, 22029, 25049 ]
specialCheck = [1006, 1007, 3000, 3001, 5010, 7000, 22029, 28056, 28057]
for ich, (led, dar) in enumerate(zip(specsL, specsD)):
if chNos[ich] in knownDead:
outData.append([chNos[ich], [0, 0, 0, 0, 0, 0], [0, 0, 0, 0, 0, 0], 0, 0])
if not optimise:
for kname in pIO.generic_params:
outDict[kname] = (0, 0)
param_writer(chNos[ich], outDict)
print('no peaks in dark spectrum, spec ', ich)
continue
## Limits for safe fit
b1 = 0
b2 = len(dar)
if min_stat != 0:
valid_bins = np.argwhere(led>=min_stat)
b1 = valid_bins[0][0]
b2 = valid_bins[-1][0]
outDict[pIO.generic_params[-2]] = (bins[b1], bins[min(len(bins)-1, b2)])
# Seed finding
pD = find_peaks_cwt(dar, np.arange(2, 20), min_snr=2)
if len(pD) == 0:
## Try to salvage in case not a masked channel
## Masked channels have al entries in one bin.
if led[led>0].size == 1:
outData.append([0., 0., 0., 0., 0., 0., 0.])
print('no peaks in dark spectrum, spec ', ich)
continue
else:
pD = np.array([dar.argmax()])
## Fit the dark spectrum with a Gaussian (not really necessary for the conv option)
gb0 = [(0, -100, 0), (1e99, 100, 10000)]
sd0 = (dar.sum(), 0, 2)
errs = np.sqrt(dar[pD[0]-5:pD[0]+5])
errs[errs==0] = 0.1
gfitRes = fitf.fit(fitf.gauss, bins[pD[0]-5:pD[0]+5], dar[pD[0]-5:pD[0]+5], sd0, sigma=errs, bounds=gb0)
outDict[pIO.generic_params[2]] = (gfitRes.values[1], gfitRes.errors[1])
outDict[pIO.generic_params[3]] = (gfitRes.values[2], gfitRes.errors[2])
## Scale just in case we lost a different amount of integrals in dark and led
## scale = led.sum() / dar.sum()
scale = 1
## Take into account the scale in seed finding (could affect Poisson mu)????
ped_vals = np.array([gfitRes.values[0] * scale, gfitRes.values[1], gfitRes.values[2]])
binR = bins[b1:b2]
global darr
darr = dar[b1:b2] * scale
darr = darr[binR<5]
seeds, bounds = seeds_and_bounds(ich, func_name, bins[b1:b2], led[b1:b2],
ped_vals, gfitRes.errors, limit_ped)
## Protect low light channels
if seeds[1] < 0.2:
llchans.append(chNos[ich])
## Dodgy setting of high charge dark bins to zero
dar[bins>gfitRes.values[1] + 3*gfitRes.values[2]] = 0
##
if 'dfunc' in func_name:
respF = ffuncs[func_name](dark_spectrum=dar[b1:b2] * scale,
pedestal_mean=gfitRes.values[1],
pedestal_sigma=gfitRes.values[2])
elif 'conv' in func_name:
respF = ffuncs[func_name](dark_spectrum=dar[b1:b2] * scale,
bins=bins[b1:b2])
else:
respF = ffuncs[func_name]
## The fit
errs = np.sqrt(led)
if not 'gau' in func_name:
errs = np.sqrt(errs**2 + np.exp(-2 * seeds[1]) * dar)
errs[errs==0] = 0.001
print('About to fit channel ', chNos[ich])
rfit = fitf.fit(respF, bins[b1:b2], led[b1:b2], seeds, sigma=errs[b1:b2], bounds=bounds)
chi = rfit.chi2
## Attempt to catch bad fits and refit (currently only valid for dfunc and conv)
if chi >= 7 or rfit.values[3] >= 2.5 or rfit.values[3] <= 1:
## The offending parameter seems to be the sigma in most cases
nseed = rfit.values
nseed[3] = 1.7
nbound = [(bounds[0][0], bounds[0][1], bounds[0][2], 1),
(bounds[1][0], bounds[1][1], bounds[1][2], 2.5)]
rfit = fitf.fit(respF, bins[b1:b2], led[b1:b2], nseed, sigma=errs[b1:b2], bounds=nbound)
chi = rfit.chi2
if not optimise:
if chNos[ich] in specialCheck or chi >= 10 or rfit.values[2] < 12 or rfit.values[2] > 19 or rfit.values[3] > 3:
if chNos[ich] in specialCheck: print('Special check channel '+str(chNos[ich]))
print('Channel fit: ', rfit.values, chi)
plt.errorbar(bins, led, xerr=0.5*np.diff(bins)[0], yerr=errs, fmt='b.')
plt.plot(bins[b1:b2], respF(bins[b1:b2], *rfit.values), 'r')
plt.plot(bins[b1:b2], respF(bins[b1:b2], *seeds), 'g')
plt.title('Spe response fit to channel '+str(chNos[ich]))
plt.xlabel('ADC')
plt.ylabel('AU')
plt.show()
outData.append([chNos[ich], rfit.values, rfit.errors, respF.n_gaussians, chi])
outDict[pIO.generic_params[0]] = (rfit.values[0], rfit.errors[0])
outDict[pIO.generic_params[1]] = (rfit.values[1], rfit.errors[1])
gIndx = 2
if 'gau' in func_name:
gaIndx = 4
outDict[pIO.generic_params[4]] = (rfit.values[gIndx], rfit.errors[gIndx])
outDict[pIO.generic_params[5]] = (rfit.values[gIndx+1], rfit.errors[gIndx+1])
outDict[pIO.generic_params[-1]] = (respF.n_gaussians, rfit.chi2)
if not optimise:
param_writer(chNos[ich], outDict)
## Couple of plots
gainIndx = 2
if 'gau' in func_name:
gainIndx = 4
plot_names = ["Gain", "1pe sigma", "Poisson mu", "chi2"]
pVals = [np.fromiter((ch[1][gainIndx] for ch in outData), np.float),
np.fromiter((ch[1][gainIndx+1] for ch in outData), np.float),
np.fromiter((ch[1][1] for ch in outData), np.float),
np.fromiter((ch[4] for ch in outData), np.float)]
if optimise:
sipmIn.close()
return pVals
pOut.close()
#global scalerChis
pos_x = DB.DataSiPM(run_no).X.values
pos_y = DB.DataSiPM(run_no).Y.values
chNos = DB.DataSiPM(run_no).SensorID.values
## vals2D = np.zeros((int((pos_x.max()-pos_x.min())/10)+1, int((pos_y.max()-pos_y.min())/10)+1))
## print('shape: ', vals2D.shape)
## *_, chis = display_matrix(pos_x, pos_y, pVals[3])
## Trampa
#pVals[3][pVals[3]>10] = 0
plt.scatter(pos_x, pos_y, c=pVals[3])
plt.title("Fit chi^2 map")
plt.xlabel("X (mm)")
plt.ylabel("Y (mm)")
plt.colorbar()
plt.show()
#mask = np.argwhere((pVals[2]>=2) & (pVals[2]<8))
#mask = np.argwhere((chNos<9000) | (chNos>=11000))
#plt.scatter(pos_x[mask], pos_y[mask], c=pVals[2][mask])
plt.scatter(pos_x, pos_y, c=pVals[2])
plt.title("Fit poisson mu")
plt.xlabel("X (mm)")
plt.ylabel("Y (mm)")
plt.colorbar()
plt.show()
## fg2, ax2 = plt.subplots()
## p = ax2.pcolor(pos_x, pos_y, scalerChis, cmap=cm.Spectral, vmin=np.abs(scalerChis).min(), vmax=np.abs(scalerChis).max())
## plt.colorbar(p, ax=ax2)
## fg2.show()
#plt.hist(scalerChis, bins=1000)
#plt.show()
fig, axes = plt.subplots(nrows=2, ncols=2, figsize=(20,6))
chiVs = pVals[3]
for ax, val, nm in zip(axes.flatten(), pVals, plot_names):
ax.hist(val[(chiVs<10) & (chiVs!=0)], bins=100)
ax.set_title(nm)
fig.show()
input('finished with plots?')
print('Low light chans:', llchans)
def main():
""" Fitting for pmt response to ~spe led pulses """
fileName = sys.argv[1]
funcName = sys.argv[2]
min_stat = 0
limit_ped = 10000.
fix_ped = False
if len(sys.argv) > 3:
min_stat = int(sys.argv[3])
limit_ped = int(sys.argv[4])
if limit_ped == 0:
fix_ped = True
limit_ped = 10000
dats = tb.open_file(fileName, 'r')
bins = np.array(dats.root.HIST.pmt_dark_bins)
specsD = np.array(dats.root.HIST.pmt_dark).sum(axis=0)
specsL = np.array(dats.root.HIST.pmt_spe).sum(axis=0)
## bins = np.array(dats.root.HIST.pmtdar_bins)
## specsD = np.array(dats.root.HIST.pmtdar).sum(axis=0)
## specsL = np.array(dats.root.HIST.pmtspe).sum(axis=0)
#respF = fitf.SensorSpeResponse(bins)
#ffuncs = {'ngau':respF.set_gaussians, 'intgau':respF.min_integ_gaussians, 'dfunc': respF.scaled_dark_pedestal, 'conv':respF.dark_convolution}
#pOrders = {'ngau':'norm err ped err gain err poismu err pedSig err 1peSig err', 'intgau':'norm err ped err gain err poismu err pedSig err 1peSig err', 'dfunc':'norm err gain err poismu err 1peSig err', 'conv':'norm err gain err poismu err 1peSig err'}
ffuncs = {
'ngau': speR.poisson_scaled_gaussians(n_gaussians=7),
'intgau': speR.poisson_scaled_gaussians(min_integral=100),
'dfunc': partial(speR.scaled_dark_pedestal, min_integral=100),
'conv': partial(speR.dark_convolution, min_integral=100)
}
pOrders = {
'ngau': 'norm err poismu err ped err pedSig err gain err 1peSig err',
'intgau': 'norm err poismu err ped err pedSig err gain err 1peSig err',
'dfunc': 'norm err poismu err gain err 1peSig err',
'conv': 'norm err poismu err gain err 1peSig err'
}
## Not ideal...
fnam = {
'ngau': 'poisson_scaled_gaussians_ngau',
'intgau': 'poisson_scaled_gaussians_min',
'dfunc': 'scaled_dark_pedestal',
'conv': 'dark_convolution'
}
## pOut = open('pmtCalParOut_R'+fileName[-7:-3]+'_F'+funcName+'.dat', 'w')
posRunNo = fileName.find('R')
pOut = tb.open_file(
'pmtCalParOut_R' + fileName[posRunNo + 1:posRunNo + 5] + '_F' +
funcName + '.h5', 'w')
## pOut.write('InputFile: '+fileName+'\n')
## pOut.write('FuncName: '+funcName+'\n')
## pOut.write('Minimum stats: '+str(min_stat)+'\n')
## pOut.write('Pedestal nsig limits: +/-'+str(limit_ped)+'\n')
## pOut.write('\n \n')
## pOut.write('Parameter order: '+pOrders[funcName]+'\n')
param_writer = pIO.channel_param_writer(pOut,
sensor_type='pmt',
func_name=fnam[funcName],
param_names=pIO.generic_params)
test_names = ['normalization', 'Pedestal', 'Pedestal_sig']
pTest_writer = pIO.channel_param_writer(pOut,
sensor_type='pmt',
func_name='Pedestal_gaussian',
param_names=test_names,
covariance=(3, 3))
outDict = {}
testDict = {}
for i, (dspec, lspec) in enumerate(zip(specsD, specsL)):
b1 = 0
b2 = len(dspec)
if min_stat != 0:
valid_bins = np.argwhere(lspec >= min_stat)
b1 = valid_bins[0][0]
b2 = valid_bins[-1][0]
outDict[pIO.generic_params[-2]] = (bins[b1],
bins[min(len(bins) - 1, b2)])
## Fit the dark spectrum with a Gaussian (not really necessary for the conv option)
gb0 = [(0, -100, 0), (1e99, 100, 10000)]
av, rms = weighted_av_std(bins[dspec > 100], dspec[dspec > 100])
sd0 = (dspec.sum(), av, rms)
errs = np.sqrt(dspec[dspec > 100])
errs[errs == 0] = 0.0001
gfitRes = fitf.fit(fitf.gauss,
bins[dspec > 100],
dspec[dspec > 100],
sd0,
sigma=errs,
bounds=gb0)
outDict[pIO.generic_params[2]] = (gfitRes.values[1], gfitRes.errors[1])
outDict[pIO.generic_params[3]] = (gfitRes.values[2], gfitRes.errors[2])
testDict[test_names[0]] = (gfitRes.values[0], gfitRes.errors[0])
testDict[test_names[1]] = (gfitRes.values[1], gfitRes.errors[1])
testDict[test_names[2]] = (gfitRes.values[2], gfitRes.errors[2])
testDict["covariance"] = gfitRes.cov
pTest_writer(i, testDict)
## Scale just in case we lost a different amount of integrals in dark and led
scale = lspec.sum() / dspec.sum()
#print('Scale check: ', scale)
#respF.set_dark_func(dspec[b1:b2], cent=gfitRes.values[1], sig=gfitRes.values[2], scale=scale)
#respF.redefine_bins(bins[b1:b2])
if 'dfunc' in funcName:
respF = ffuncs[funcName](dark_spectrum=dspec[b1:b2] * scale,
pedestal_mean=gfitRes.values[1],
pedestal_sigma=gfitRes.values[2])
elif 'conv' in funcName:
respF = ffuncs[funcName](dark_spectrum=dspec[b1:b2] * scale,
bins=bins[b1:b2])
elif fix_ped:
respF = partial(ffuncs[funcName],
pedestal_mean=gfitRes.values[1],
pedestal_sigma=gfitRes.values[2])
else:
respF = ffuncs[funcName]
## Take into account the scale in seed finding (could affect Poisson mu)????
ped_vals = np.array(
[gfitRes.values[0] * scale, gfitRes.values[1], gfitRes.values[2]])
binR = bins[b1:b2]
global darr
darr = dspec[b1:b2] * scale
darr = darr[binR < 0]
seeds, bounds = seeds_and_bounds(i, funcName, bins[b1:b2],
lspec[b1:b2], ped_vals,
gfitRes.errors, limit_ped)
print(seeds)
#print(bounds)
## The fit
errs = np.sqrt(lspec[b1:b2])
if not 'gau' in funcName:
errs = np.sqrt(errs**2 + np.exp(-2 * seeds[1]) * dspec[b1:b2])
errs[errs == 0] = 1 #0.001
## rfit = fitf.fit(ffuncs[funcName], bins[b1:b2], lspec[b1:b2], seeds, sigma=errs, bounds=bounds)
rfit = fitf.fit(respF,
bins[b1:b2],
lspec[b1:b2],
seeds,
sigma=errs,
bounds=bounds)
## plot the result
plt.errorbar(bins,
lspec,
xerr=0.5 * np.diff(bins)[0],
yerr=np.sqrt(lspec),
fmt='b.')
## plt.plot(bins[b1:b2], rfit.fn(bins[b1:b2]), 'r')
## plt.plot(bins[b1:b2], ffuncs[funcName](bins[b1:b2], *seeds), 'g')
plt.plot(bins[b1:b2], rfit.fn(bins[b1:b2]), 'r')
plt.plot(bins[b1:b2], respF(bins[b1:b2], *seeds), 'g')
plt.title('Spe response fit to channel ' + str(i))
plt.xlabel('ADC')
plt.ylabel('AU')
#print('Sensor index: ', i)
#print('Fit values: ', rfit.values)
#print('Fit errors: ', rfit.errors)
## print('Number of Gaussians: ', respF.nGau)
#print('Number of Gaussians: ', respF.n_gaussians)
#print('Fit chi2: ', rfit.chi2)
## pOut.write('Indx: '+str(i)+', params: '+str(np.vstack((rfit.values, rfit.errors)).reshape((-1,), order='F'))+', ngaus = '+str(respF.nGau)+', chi2 = '+str(rfit.chi2)+'\n')
##pOut.write('Indx: '+str(i)+', params: '+str(np.vstack((rfit.values, rfit.errors)).reshape((-1,), order='F'))+', ngaus = '+str(respF.n_gaussians)+', chi2 = '+str(rfit.chi2)+'\n')
outDict[pIO.generic_params[0]] = (rfit.values[0], rfit.errors[0])
outDict[pIO.generic_params[1]] = (rfit.values[1], rfit.errors[1])
gIndx = 2
if 'gau' in funcName:
gIndx = 4
outDict[pIO.generic_params[4]] = (rfit.values[gIndx],
rfit.errors[gIndx])
outDict[pIO.generic_params[5]] = (rfit.values[gIndx + 1],
rfit.errors[gIndx + 1])
outDict[pIO.generic_params[-1]] = (respF.n_gaussians, rfit.chi2)
param_writer(i, outDict)
next_plot = input('press enter to move to next fit')
if 's' in next_plot:
plt.savefig('FitPMTCh' + str(i) + '.png')
plt.clf()
plt.close()
pOut.close()
}
## Loop over the spectra:
outData = []
outDict = {}
llchans = []
fnam = {
'ngau': 'poisson_scaled_gaussians_ngau',
'intgau': 'poisson_scaled_gaussians_min',
'dfunc': 'scaled_dark_pedestal',
'conv': 'dark_convolution'
}
out_file = tb.open_file(
'sipmCalParOut_R' + str(run_no) + '_F' + func_name + '_scale1.5.h5', 'w')
param_writer = cpio.channel_param_writer(out_file,
sensor_type='sipm',
func_name=fnam[func_name],
param_names=cpio.generic_params)
knownDead = []
specialCheck = [16028]
if black_box:
init_sns = 192
detector = 'Black Box'
else:
init_sns = 0
detector = 'DEMO++'
for ich, led, dar in zip(range(init_sns, len(lspecs)), lspecs[init_sns:],
dspecs[init_sns:]):
if channs[ich] in knownDead: