def _get_mswd(self):
self.valid_mswd=False
if self._degree==1:
# a = self.intercept
# b = self.slope
coeffs=self._calculate_coefficients()
if not len(coeffs):
self.calculate()
coeffs = self._calculate_coefficients()
if len(coeffs):
x = self.xs
y = self.ys
sx = self.xserr
sy = self.yserr
if not len(sx):
sx=zeros(self.n)
if not len(sy):
sy=zeros(self.n)
x=self._clean_array(x)
y=self._clean_array(y)
sx=self._clean_array(sx)
sy=self._clean_array(sy)
m=calculate_mswd2(x, y, sx, sy, coeffs[1], coeffs[0])
self.valid_mswd=validate_mswd(m, len(ys), k=2)
return m
else:
return 0
else:
return super(OLSRegressor, self)._get_mswd()
def _add_info(self, plot, reg, label=None, text_color='black'):
intercept = reg.predict(0)
err = reg.get_intercept_error()
mswd = reg.mswd
n = reg.n
try:
inv_intercept = intercept ** -1
p = calc_percent_error(intercept, err, scale=1)
err = inv_intercept * p
mse = err * mswd ** 0.5
v, e, p, mse = floatfmt(inv_intercept, s=3), floatfmt(err, s=3), floatfmt(p * 100, n=2), floatfmt(mse, s=3)
except ZeroDivisionError:
v, e, p, mse = 'NaN', 'NaN', 'NaN', 'NaN'
ratio_line = u'Ar40/Ar36= {} {}{} ({}%) mse= {}'.format(v, PLUSMINUS, e, p, mse)
u = self._ref_age_units
age = self.analysis_group.isochron_age
v = age.nominal_value
e = age.std_dev
p = format_percent_error(v, e)
mse_age = e * mswd ** 0.5
valid = validate_mswd(mswd, n)
mswd = '{:0.2f}'.format(mswd)
if not valid:
mswd = '*{}'.format(mswd)
# n = len([ai for ai in self.analyses if ai.temp_status == 0])
# mswd = 'NaN'
age_line = u'Age= {} {}{} ({}%) {}. mse= {}'.format(floatfmt(v, n=3),
PLUSMINUS,
floatfmt(e, n=4, s=3), p, u,
floatfmt(mse_age, s=3))
mswd_line = 'N= {} mswd= {}'.format(n, mswd)
if label is None:
th = 0
for overlay in plot.overlays:
if isinstance(overlay, OffsetPlotLabel):
w, h = overlay.get_preferred_size()
th += h + 2
label = OffsetPlotLabel(
offset=(1, th),
component=plot,
overlay_position='inside bottom',
hjustify='left',
bgcolor='white',
color=text_color)
plot.overlays.append(label)
self._plot_label = label
lines = u'\n'.join((ratio_line, age_line, mswd_line))
label.text = u'{}'.format(lines)
label.request_redraw()
def _get_mswd(self):
self.valid_mswd = False
if self._degree == 1:
# a = self.intercept
# b = self.slope
coeffs = self._calculate_coefficients()
if not len(coeffs):
self.calculate()
coeffs = self._calculate_coefficients()
if len(coeffs):
x = self.xs
y = self.ys
sx = self.xserr
sy = self.yserr
if not len(sx):
sx = zeros(self.n)
if not len(sy):
sy = zeros(self.n)
x = self._clean_array(x)
y = self._clean_array(y)
sx = self._clean_array(sx)
sy = self._clean_array(sy)
m = calculate_mswd2(x, y, sx, sy, coeffs[1], coeffs[0])
self.valid_mswd = validate_mswd(m, len(ys), k=2)
return m
else:
return 0
else:
return super(OLSRegressor, self)._get_mswd()
def set_mean_j(self, use_weights):
ans = [a for a in self.analyses if not a.is_omitted()]
if ans:
j, mswd = mean_j(ans, use_weights, self.error_kind,
self.monitor_age, self.lambda_k)
self.mean_j = nominal_value(j)
self.mean_jerr = std_dev(j)
self.mean_j_mswd = mswd
self.mean_j_valid_mswd = validate_mswd(mswd, len(ans))
self.n = len(ans)
def _validate_mswd(self, kind, unks, attr):
if attr == 'age':
xs = [u.age for u in unks]
es = [u.age_err_wo_j for u in unks]
elif attr == 'kca':
vs = [u.kca for u in unks]
xs = [nominal_value(v) for v in vs]
es = [std_dev(v) for v in vs]
mswd = calculate_mswd(xs, es)
if kind == 'mahon':
v = validate_mswd(mswd, len(xs))
elif kind == 'threshold':
v = mswd < self.mswd_threshold
else:
v = abs(mswd -
self._prev_mswd) / mswd * 100 < self.plateau_threshold
self._prev_mswd = mswd
return v
def _add_info(self, plot, reg, label=None, text_color='black'):
intercept = reg.predict(0)
err = reg.get_intercept_error()
mswd = reg.mswd
n = reg.n
try:
inv_intercept = intercept ** -1
p = calc_percent_error(inv_intercept, err)
v = floatfmt(inv_intercept, s=3)
e = floatfmt(err, s=3)
mse = err * mswd ** 0.5
mse = floatfmt(mse, s=3)
#v = '{:0.2f}'.format(inv_intercept)
#e = '{:0.3f}'.format(err)
except ZeroDivisionError:
v, e, p, mse = 'NaN', 'NaN', 'NaN', 'NaN'
ratio_line = 'Ar40/Ar36= {} +/-{} ({}%) mse= {}'.format(v, e, p, mse)
j = self._ref_j
u = self._ref_age_units
#xint = ufloat(reg.x_intercept, reg.x_intercept_error)
#try:
# R = xint ** -1
#except ZeroDivisionError:
# R = 0
#
#v, e, mse_age = 0, 0, 0
#if R > 0:
# age = age_equation(j, R, arar_constants=self._ref_constants)
age = self._age
v = age.nominal_value
e = age.std_dev
mse_age = e * mswd ** 0.5
valid = validate_mswd(mswd, n)
mswd = '{:0.2f}'.format(mswd)
if not valid:
mswd = '*{}'.format(mswd)
#n = len([ai for ai in self.analyses if ai.temp_status == 0])
#mswd = 'NaN'
age_line = 'Age= {} +/-{} ({}%) {}. mse= {}'.format(floatfmt(v, n=3),
floatfmt(e, n=4, s=3), p, u,
floatfmt(mse_age, s=3))
mswd_line = 'N= {} mswd= {}'.format(n, mswd)
if label is None:
label = OffsetPlotLabel(
offset=(0, 50 * self.group_id),
component=plot,
overlay_position='inside bottom',
hjustify='left',
color=text_color)
plot.overlays.append(label)
self._plot_label = label
lines = '\n'.join((ratio_line, age_line, mswd_line))
label.text = '{}'.format(lines)
label.request_redraw()
def _add_info(self, plot, reg, label=None, text_color='black'):
intercept = reg.predict(0)
err = reg.get_intercept_error()
mswd = reg.mswd
n = reg.n
try:
inv_intercept = intercept**-1
p = calc_percent_error(inv_intercept, err)
v = floatfmt(inv_intercept, s=3)
e = floatfmt(err, s=3)
mse = err * mswd**0.5
mse = floatfmt(mse, s=3)
#v = '{:0.2f}'.format(inv_intercept)
#e = '{:0.3f}'.format(err)
except ZeroDivisionError:
v, e, p, mse = 'NaN', 'NaN', 'NaN', 'NaN'
ratio_line = 'Ar40/Ar36= {} +/-{} ({}%) mse= {}'.format(v, e, p, mse)
j = self._ref_j
u = self._ref_age_units
#xint = ufloat(reg.x_intercept, reg.x_intercept_error)
#try:
# R = xint ** -1
#except ZeroDivisionError:
# R = 0
#
#v, e, mse_age = 0, 0, 0
#if R > 0:
# age = age_equation(j, R, arar_constants=self._ref_constants)
age = self._age
v = age.nominal_value
e = age.std_dev
mse_age = e * mswd**0.5
valid = validate_mswd(mswd, n)
mswd = '{:0.2f}'.format(mswd)
if not valid:
mswd = '*{}'.format(mswd)
#n = len([ai for ai in self.analyses if ai.temp_status == 0])
#mswd = 'NaN'
age_line = 'Age= {} +/-{} ({}%) {}. mse= {}'.format(
floatfmt(v, n=3), floatfmt(e, n=4, s=3), p, u,
floatfmt(mse_age, s=3))
mswd_line = 'N= {} mswd= {}'.format(n, mswd)
if label is None:
label = OffsetPlotLabel(offset=(0, 50 * self.group_id),
component=plot,
overlay_position='inside bottom',
hjustify='left',
color=text_color)
plot.overlays.append(label)
self._plot_label = label
lines = '\n'.join((ratio_line, age_line, mswd_line))
label.text = '{}'.format(lines)
label.request_redraw()
def _add_results_info(self, plot, label=None, text_color='black'):
ag = self.analysis_group
age = ag.isochron_age
a = ag.isochron_4036
n = ag.nanalyses
mswd = ag.isochron_regressor.mswd
intercept, err = nominal_value(a), std_dev(a)
try:
inv_intercept = intercept ** -1
p = calc_percent_error(intercept, err, scale=1)
err = inv_intercept * p * self.options.nsigma
mse = err * mswd ** 0.5
v, e, p, mse = floatfmt(inv_intercept, s=3), floatfmt(err, s=3), floatfmt(p * 100, n=2), floatfmt(mse, s=3)
except ZeroDivisionError:
v, e, p, mse = 'NaN', 'NaN', 'NaN', 'NaN'
sample_line = u'{}({})'.format(ag.identifier, ag.sample)
ratio_line = u'Ar40/Ar36= {} {}{} ({}%) mse= {}'.format(v, PLUSMINUS, e, p, mse)
v = nominal_value(age)
e = std_dev(age) * self.options.nsigma
p = format_percent_error(v, e)
mse_age = e * mswd ** 0.5
valid = validate_mswd(mswd, n)
mswd = '{:0.2f}'.format(mswd)
if not valid:
mswd = '*{}'.format(mswd)
age_line = u'Age= {} {}{} ({}%) {}. mse= {}'.format(floatfmt(v, n=3),
PLUSMINUS,
floatfmt(e, n=4, s=3), p, ag.age_units,
floatfmt(mse_age, s=3))
mswd_line = 'N= {} mswd= {}'.format(n, mswd)
if label is None:
th = 0
for overlay in plot.overlays:
if isinstance(overlay, OffsetPlotLabel):
w, h = overlay.get_preferred_size()
th += h + self.options.results_info_spacing
label = OffsetPlotLabel(
offset=(1, th),
component=plot,
overlay_position='inside bottom',
hjustify='left',
bgcolor='white',
font=self.options.results_font,
color=text_color)
plot.overlays.append(label)
self._plot_label = label
lines = u'\n'.join((sample_line, ratio_line, age_line, mswd_line))
label.text = u'{}'.format(lines)
label.bgcolor = plot.bgcolor
label.request_redraw()
def _add_results_info(self, plot, label=None, text_color='black'):
ag = self.analysis_group
age = ag.isochron_age
a = ag.isochron_3640
n = ag.nanalyses
mswd = ag.isochron_regressor.mswd
intercept, err = nominal_value(a), std_dev(a)
try:
inv_intercept = intercept ** -1
p = calc_percent_error(intercept, err, scale=1)
err = inv_intercept * p * self.options.nsigma
mse = err * mswd ** 0.5
sf = self.options.yintercept_sig_figs
v, e, p, mse = floatfmt(inv_intercept, n=sf, s=3), floatfmt(err, n=sf, s=3), \
floatfmt(p * 100, n=2), floatfmt(mse, s=3)
except ZeroDivisionError:
v, e, p, mse = 'NaN', 'NaN', 'NaN', 'NaN'
sample_line = u'{}({})'.format(ag.identifier, ag.sample)
mse_text = ''
if self.options.include_4036_mse:
mse_text = ' MSE= {}'.format(mse)
ptext = ''
if self.options.include_percent_error:
ptext = ' ({}%)'.format(p)
ratio_line = '<sup>40</sup>Ar/<sup>36</sup>Ar= {} {}{}{}{}'.format(v, PLUSMINUS, e, ptext, mse_text)
v = nominal_value(age)
e = std_dev(age) * self.options.nsigma
p = format_percent_error(v, e)
mse_age = e * mswd ** 0.5
valid = validate_mswd(mswd, n)
mswd = '{:0.2f}'.format(mswd)
if not valid:
mswd = '*{}'.format(mswd)
af = self.options.age_sig_figs
mse_text = ''
if self.options.include_age_mse:
mse_text = ' MSE= {}'.format(floatfmt(mse_age, s=3))
age_line = u'Age= {} {}{} ({}%) {}{}'.format(floatfmt(v, n=af),
PLUSMINUS,
floatfmt(e, n=af, s=3), p, ag.age_units, mse_text)
mswd_line = 'N= {} MSWD= {}'.format(n, mswd)
if label is None:
th = 0
for overlay in plot.overlays:
if isinstance(overlay, OffsetPlotLabel):
w, h = overlay.get_preferred_size()
th += h + self.options.results_info_spacing
label = OffsetPlotLabel(
offset=(1, th),
component=plot,
overlay_position='inside bottom',
hjustify='left',
bgcolor='white',
font=self.options.results_font,
color=text_color)
plot.overlays.append(label)
self._plot_label = label
lines = u'\n'.join((sample_line, ratio_line, age_line, mswd_line))
label.text = u'{}'.format(lines)
label.bgcolor = plot.bgcolor
label.request_redraw()