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PmagPy/PmagPy | programs/demag_gui.py | Demag_GUI.right_click_specimen_equalarea | def right_click_specimen_equalarea(self, event):
"""
toggles between zoom and pan effects for the specimen equal area on
right click
Parameters
----------
event : the wx.MouseEvent that triggered the call of this function
Alters
------
specimen_E... | python | def right_click_specimen_equalarea(self, event):
"""
toggles between zoom and pan effects for the specimen equal area on
right click
Parameters
----------
event : the wx.MouseEvent that triggered the call of this function
Alters
------
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PmagPy/PmagPy | programs/demag_gui.py | Demag_GUI.on_change_specimen_mouse_cursor | def on_change_specimen_mouse_cursor(self, event):
"""
If mouse is over data point making it selectable change the shape of
the cursor
Parameters
----------
event : the wx Mouseevent for that click
"""
if not self.specimen_EA_xdata or not self.specimen_EA_... | python | def on_change_specimen_mouse_cursor(self, event):
"""
If mouse is over data point making it selectable change the shape of
the cursor
Parameters
----------
event : the wx Mouseevent for that click
"""
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PmagPy/PmagPy | programs/demag_gui.py | Demag_GUI.on_equalarea_specimen_select | def on_equalarea_specimen_select(self, event):
"""
Get mouse position on double click find the nearest interpretation
to the mouse
position then select that interpretation
Parameters
----------
event : the wx Mouseevent for that click
Alters
----... | python | def on_equalarea_specimen_select(self, event):
"""
Get mouse position on double click find the nearest interpretation
to the mouse
position then select that interpretation
Parameters
----------
event : the wx Mouseevent for that click
Alters
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PmagPy/PmagPy | programs/demag_gui.py | Demag_GUI.right_click_high_equalarea | def right_click_high_equalarea(self, event):
"""
toggles between zoom and pan effects for the high equal area on
right click
Parameters
----------
event : the wx.MouseEvent that triggered the call of this function
Alters
------
high_EA_setting, t... | python | def right_click_high_equalarea(self, event):
"""
toggles between zoom and pan effects for the high equal area on
right click
Parameters
----------
event : the wx.MouseEvent that triggered the call of this function
Alters
------
high_EA_setting, t... | [
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PmagPy/PmagPy | programs/demag_gui.py | Demag_GUI.on_change_high_mouse_cursor | def on_change_high_mouse_cursor(self, event):
"""
If mouse is over data point making it selectable change the shape of
the cursor
Parameters
----------
event : the wx Mouseevent for that click
"""
if self.ie_open and self.ie.show_box.GetValue() != "specim... | python | def on_change_high_mouse_cursor(self, event):
"""
If mouse is over data point making it selectable change the shape of
the cursor
Parameters
----------
event : the wx Mouseevent for that click
"""
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PmagPy/PmagPy | programs/demag_gui.py | Demag_GUI.on_equalarea_high_select | def on_equalarea_high_select(self, event, fig=None, canvas=None):
"""
Get mouse position on double click find the nearest interpretation
to the mouse position then select that interpretation
Parameters
----------
event : the wx Mouseevent for that click
Alters
... | python | def on_equalarea_high_select(self, event, fig=None, canvas=None):
"""
Get mouse position on double click find the nearest interpretation
to the mouse position then select that interpretation
Parameters
----------
event : the wx Mouseevent for that click
Alters
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PmagPy/PmagPy | programs/demag_gui.py | Demag_GUI.Add_text | def Add_text(self):
"""
Add measurement data lines to the text window.
"""
self.selected_meas = []
if self.COORDINATE_SYSTEM == 'geographic':
zijdblock = self.Data[self.s]['zijdblock_geo']
elif self.COORDINATE_SYSTEM == 'tilt-corrected':
zijdblock ... | python | def Add_text(self):
"""
Add measurement data lines to the text window.
"""
self.selected_meas = []
if self.COORDINATE_SYSTEM == 'geographic':
zijdblock = self.Data[self.s]['zijdblock_geo']
elif self.COORDINATE_SYSTEM == 'tilt-corrected':
zijdblock ... | [
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PmagPy/PmagPy | programs/demag_gui.py | Demag_GUI.select_bounds_in_logger | def select_bounds_in_logger(self, index):
"""
sets index as the upper or lower bound of a fit based on what the
other bound is and selects it in the logger. Requires 2 calls to
completely update a interpretation. NOTE: Requires an interpretation
to exist before it is called.
... | python | def select_bounds_in_logger(self, index):
"""
sets index as the upper or lower bound of a fit based on what the
other bound is and selects it in the logger. Requires 2 calls to
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PmagPy/PmagPy | programs/demag_gui.py | Demag_GUI.on_right_click_listctrl | def on_right_click_listctrl(self, event):
"""
right click on the listctrl toggles measurement bad
"""
g_index = event.GetIndex()
if self.Data[self.s]['measurement_flag'][g_index] == 'g':
self.mark_meas_bad(g_index)
else:
self.mark_meas_good(g_inde... | python | def on_right_click_listctrl(self, event):
"""
right click on the listctrl toggles measurement bad
"""
g_index = event.GetIndex()
if self.Data[self.s]['measurement_flag'][g_index] == 'g':
self.mark_meas_bad(g_index)
else:
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PmagPy/PmagPy | programs/demag_gui.py | Demag_GUI.onSelect_specimen | def onSelect_specimen(self, event):
"""
update figures and text when a new specimen is selected
"""
self.selected_meas = []
self.select_specimen(str(self.specimens_box.GetValue()))
if self.ie_open:
self.ie.change_selected(self.current_fit)
self.update_... | python | def onSelect_specimen(self, event):
"""
update figures and text when a new specimen is selected
"""
self.selected_meas = []
self.select_specimen(str(self.specimens_box.GetValue()))
if self.ie_open:
self.ie.change_selected(self.current_fit)
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PmagPy/PmagPy | programs/demag_gui.py | Demag_GUI.on_enter_specimen | def on_enter_specimen(self, event):
"""
upon enter on the specimen box it makes that specimen the current
specimen
"""
new_specimen = self.specimens_box.GetValue()
if new_specimen not in self.specimens:
self.user_warning(
"%s is not a valid spe... | python | def on_enter_specimen(self, event):
"""
upon enter on the specimen box it makes that specimen the current
specimen
"""
new_specimen = self.specimens_box.GetValue()
if new_specimen not in self.specimens:
self.user_warning(
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PmagPy/PmagPy | programs/demag_gui.py | Demag_GUI.get_new_PCA_parameters | def get_new_PCA_parameters(self, event):
"""
calculate statistics when temperatures are selected
or PCA type is changed
"""
tmin = str(self.tmin_box.GetValue())
tmax = str(self.tmax_box.GetValue())
if tmin == "" or tmax == "":
return
if tmin ... | python | def get_new_PCA_parameters(self, event):
"""
calculate statistics when temperatures are selected
or PCA type is changed
"""
tmin = str(self.tmin_box.GetValue())
tmax = str(self.tmax_box.GetValue())
if tmin == "" or tmax == "":
return
if tmin ... | [
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PmagPy/PmagPy | programs/demag_gui.py | Demag_GUI.on_select_fit | def on_select_fit(self, event):
"""
Picks out the fit selected in the fit combobox and sets it to the
current fit of the GUI then calls the select function of the fit to
set the GUI's bounds boxes and alter other such parameters
Parameters
----------
event : the ... | python | def on_select_fit(self, event):
"""
Picks out the fit selected in the fit combobox and sets it to the
current fit of the GUI then calls the select function of the fit to
set the GUI's bounds boxes and alter other such parameters
Parameters
----------
event : the ... | [
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PmagPy/PmagPy | programs/demag_gui.py | Demag_GUI.on_enter_fit_name | def on_enter_fit_name(self, event):
"""
Allows the entering of new fit names in the fit combobox
Parameters
----------
event : the wx.ComboBoxEvent that triggers this function
Alters
------
current_fit.name
"""
if self.current_fit == None... | python | def on_enter_fit_name(self, event):
"""
Allows the entering of new fit names in the fit combobox
Parameters
----------
event : the wx.ComboBoxEvent that triggers this function
Alters
------
current_fit.name
"""
if self.current_fit == None... | [
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PmagPy/PmagPy | programs/demag_gui.py | Demag_GUI.on_save_interpretation_button | def on_save_interpretation_button(self, event):
"""
on the save button the interpretation is saved to pmag_results_table
data in all coordinate systems
"""
if self.current_fit:
self.current_fit.saved = True
calculation_type = self.current_fit.get(self.COO... | python | def on_save_interpretation_button(self, event):
"""
on the save button the interpretation is saved to pmag_results_table
data in all coordinate systems
"""
if self.current_fit:
self.current_fit.saved = True
calculation_type = self.current_fit.get(self.COO... | [
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PmagPy/PmagPy | programs/demag_gui.py | Demag_GUI.on_btn_add_fit | def on_btn_add_fit(self, event):
"""
add a new interpretation to the current specimen
Parameters
----------
event : the wx.ButtonEvent that triggered this function
Alters
------
pmag_results_data
"""
if self.auto_save.GetValue():
... | python | def on_btn_add_fit(self, event):
"""
add a new interpretation to the current specimen
Parameters
----------
event : the wx.ButtonEvent that triggered this function
Alters
------
pmag_results_data
"""
if self.auto_save.GetValue():
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PmagPy/PmagPy | programs/demag_gui.py | Demag_GUI.on_btn_delete_fit | def on_btn_delete_fit(self, event):
"""
removes the current interpretation
Parameters
----------
event : the wx.ButtonEvent that triggered this function
"""
self.delete_fit(self.current_fit, specimen=self.s) | python | def on_btn_delete_fit(self, event):
"""
removes the current interpretation
Parameters
----------
event : the wx.ButtonEvent that triggered this function
"""
self.delete_fit(self.current_fit, specimen=self.s) | [
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PmagPy/PmagPy | programs/demag_gui.py | Demag_GUI.do_auto_save | def do_auto_save(self):
"""
Delete current fit if auto_save==False,
unless current fit has explicitly been saved.
"""
if not self.auto_save.GetValue():
if self.current_fit:
if not self.current_fit.saved:
self.delete_fit(self.current... | python | def do_auto_save(self):
"""
Delete current fit if auto_save==False,
unless current fit has explicitly been saved.
"""
if not self.auto_save.GetValue():
if self.current_fit:
if not self.current_fit.saved:
self.delete_fit(self.current... | [
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PmagPy/PmagPy | programs/demag_gui.py | Demag_GUI.on_next_button | def on_next_button(self, event):
"""
update figures and text when a next button is selected
"""
self.do_auto_save()
self.selected_meas = []
index = self.specimens.index(self.s)
try:
fit_index = self.pmag_results_data['specimens'][self.s].index(
... | python | def on_next_button(self, event):
"""
update figures and text when a next button is selected
"""
self.do_auto_save()
self.selected_meas = []
index = self.specimens.index(self.s)
try:
fit_index = self.pmag_results_data['specimens'][self.s].index(
... | [
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PmagPy/PmagPy | programs/chi_magic.py | main | def main():
"""
NAME
chi_magic.py
DESCRIPTION
plots magnetic susceptibility as a function of frequency and temperature and AC field
SYNTAX
chi_magic.py [command line options]
OPTIONS
-h prints help message and quits
-f FILE, specify measurements format file... | python | def main():
"""
NAME
chi_magic.py
DESCRIPTION
plots magnetic susceptibility as a function of frequency and temperature and AC field
SYNTAX
chi_magic.py [command line options]
OPTIONS
-h prints help message and quits
-f FILE, specify measurements format file... | [
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chi_magic.py
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plots magnetic susceptibility as a function of frequency and temperature and AC field
SYNTAX
chi_magic.py [command line options]
OPTIONS
-h prints help message and quits
-f FILE, specify measurements format file, default "measurements.... | [
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PmagPy/PmagPy | programs/deprecated/thellier_magic_redo.py | main | def main():
"""
NAME
thellier_magic_redo.py
DESCRIPTION
Calculates paleointensity parameters for thellier-thellier type data using bounds
stored in the "redo" file
SYNTAX
thellier_magic_redo [command line options]
OPTIONS
-h prints help message
-usr... | python | def main():
"""
NAME
thellier_magic_redo.py
DESCRIPTION
Calculates paleointensity parameters for thellier-thellier type data using bounds
stored in the "redo" file
SYNTAX
thellier_magic_redo [command line options]
OPTIONS
-h prints help message
-usr... | [
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PmagPy/PmagPy | programs/conversion_scripts2/pmd_magic2.py | main | def main(command_line=True, **kwargs):
"""
NAME
pmd_magic.py
DESCRIPTION
converts PMD (Enkin) format files to magic_measurements format files
SYNTAX
pmd_magic.py [command line options]
OPTIONS
-h: prints the help message and quits.
-f FILE: specify input... | python | def main(command_line=True, **kwargs):
"""
NAME
pmd_magic.py
DESCRIPTION
converts PMD (Enkin) format files to magic_measurements format files
SYNTAX
pmd_magic.py [command line options]
OPTIONS
-h: prints the help message and quits.
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PmagPy/PmagPy | SPD/lib/lib_arai_plot_statistics.py | York_Regression | def York_Regression(x_segment, y_segment, x_mean, y_mean, n, lab_dc_field, steps_Arai):
"""
input: x_segment, y_segment, x_mean, y_mean, n, lab_dc_field, steps_Arai
output: x_err, y_err, x_tag, y_tag, b, b_sigma, specimen_b_beta, y_intercept,
x_intercept, x_prime, y_prime, delta_x_prime, delta_... | python | def York_Regression(x_segment, y_segment, x_mean, y_mean, n, lab_dc_field, steps_Arai):
"""
input: x_segment, y_segment, x_mean, y_mean, n, lab_dc_field, steps_Arai
output: x_err, y_err, x_tag, y_tag, b, b_sigma, specimen_b_beta, y_intercept,
x_intercept, x_prime, y_prime, delta_x_prime, delta_... | [
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PmagPy/PmagPy | SPD/lib/lib_arai_plot_statistics.py | get_vds | def get_vds(zdata, delta_y_prime, start, end):
"""takes zdata array: [[1, 2, 3], [3, 4, 5]],
delta_y_prime: 1, start value, and end value. gets vds and f_vds, etc. """
vector_diffs = []
for k in range(len(zdata)-1): # gets diff between two vectors
vector_diffs.append(numpy.sqrt(sum((numpy.array... | python | def get_vds(zdata, delta_y_prime, start, end):
"""takes zdata array: [[1, 2, 3], [3, 4, 5]],
delta_y_prime: 1, start value, and end value. gets vds and f_vds, etc. """
vector_diffs = []
for k in range(len(zdata)-1): # gets diff between two vectors
vector_diffs.append(numpy.sqrt(sum((numpy.array... | [
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PmagPy/PmagPy | SPD/lib/lib_arai_plot_statistics.py | get_SCAT_box | def get_SCAT_box(slope, x_mean, y_mean, beta_threshold = .1):
"""
takes in data and returns information about SCAT box:
the largest possible x_value, the largest possible y_value,
and functions for the two bounding lines of the box
"""
# if beta_threshold is -999, that means null
if beta_thr... | python | def get_SCAT_box(slope, x_mean, y_mean, beta_threshold = .1):
"""
takes in data and returns information about SCAT box:
the largest possible x_value, the largest possible y_value,
and functions for the two bounding lines of the box
"""
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PmagPy/PmagPy | SPD/lib/lib_arai_plot_statistics.py | in_SCAT_box | def in_SCAT_box(x, y, low_bound, high_bound, x_max, y_max):
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passing = True
upper_limit = high_bound(x)
lower_limit = low_bound(x)
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if x < 0 or y < 0:
passing = False
if y > upp... | python | def in_SCAT_box(x, y, low_bound, high_bound, x_max, y_max):
"""determines if a particular point falls within a box"""
passing = True
upper_limit = high_bound(x)
lower_limit = low_bound(x)
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PmagPy/PmagPy | SPD/lib/lib_arai_plot_statistics.py | get_SCAT_points | def get_SCAT_points(x_Arai_segment, y_Arai_segment, tmin, tmax, ptrm_checks_temperatures,
ptrm_checks_starting_temperatures, x_ptrm_check, y_ptrm_check,
tail_checks_temperatures, tail_checks_starting_temperatures,
x_tail_check, y_tail_check):
"""returns re... | python | def get_SCAT_points(x_Arai_segment, y_Arai_segment, tmin, tmax, ptrm_checks_temperatures,
ptrm_checks_starting_temperatures, x_ptrm_check, y_ptrm_check,
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x_tail_check, y_tail_check):
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PmagPy/PmagPy | SPD/lib/lib_arai_plot_statistics.py | get_SCAT | def get_SCAT(points, low_bound, high_bound, x_max, y_max):
"""
runs SCAT test and returns boolean
"""
# iterate through all relevant points and see if any of them fall outside of your SCAT box
SCAT = True
for point in points:
result = in_SCAT_box(point[0], point[1], low_bound, high_bound... | python | def get_SCAT(points, low_bound, high_bound, x_max, y_max):
"""
runs SCAT test and returns boolean
"""
# iterate through all relevant points and see if any of them fall outside of your SCAT box
SCAT = True
for point in points:
result = in_SCAT_box(point[0], point[1], low_bound, high_bound... | [
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PmagPy/PmagPy | SPD/lib/lib_arai_plot_statistics.py | fancy_SCAT | def fancy_SCAT(points, low_bound, high_bound, x_max, y_max):
"""
runs SCAT test and returns 'Pass' or 'Fail'
"""
# iterate through all relevant points and see if any of them fall outside of your SCAT box
# {'points_arai': [(x,y),(x,y)], 'points_ptrm': [(x,y),(x,y)], ...}
SCAT = 'Pass'
SCATs ... | python | def fancy_SCAT(points, low_bound, high_bound, x_max, y_max):
"""
runs SCAT test and returns 'Pass' or 'Fail'
"""
# iterate through all relevant points and see if any of them fall outside of your SCAT box
# {'points_arai': [(x,y),(x,y)], 'points_ptrm': [(x,y),(x,y)], ...}
SCAT = 'Pass'
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PmagPy/PmagPy | SPD/lib/lib_arai_plot_statistics.py | get_FRAC | def get_FRAC(vds, vector_diffs_segment):
"""
input: vds, vector_diffs_segment
output: FRAC
"""
for num in vector_diffs_segment:
if num < 0:
raise ValueError('vector diffs should not be negative')
if vds == 0:
raise ValueError('attempting to divide by zero. vds should ... | python | def get_FRAC(vds, vector_diffs_segment):
"""
input: vds, vector_diffs_segment
output: FRAC
"""
for num in vector_diffs_segment:
if num < 0:
raise ValueError('vector diffs should not be negative')
if vds == 0:
raise ValueError('attempting to divide by zero. vds should ... | [
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PmagPy/PmagPy | SPD/lib/lib_arai_plot_statistics.py | get_R_corr2 | def get_R_corr2(x_avg, y_avg, x_segment, y_segment): #
"""
input: x_avg, y_avg, x_segment, y_segment
output: R_corr2
"""
xd = x_segment - x_avg # detrend x_segment
yd = y_segment - y_avg # detrend y_segment
if sum(xd**2) * sum(yd**2) == 0: # prevent divide by zero error
return float(... | python | def get_R_corr2(x_avg, y_avg, x_segment, y_segment): #
"""
input: x_avg, y_avg, x_segment, y_segment
output: R_corr2
"""
xd = x_segment - x_avg # detrend x_segment
yd = y_segment - y_avg # detrend y_segment
if sum(xd**2) * sum(yd**2) == 0: # prevent divide by zero error
return float(... | [
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PmagPy/PmagPy | SPD/lib/lib_arai_plot_statistics.py | get_R_det2 | def get_R_det2(y_segment, y_avg, y_prime):
"""
takes in an array of y values, the mean of those values, and the array of y prime values.
returns R_det2
"""
numerator = sum((numpy.array(y_segment) - numpy.array(y_prime))**2)
denominator = sum((numpy.array(y_segment) - y_avg)**2)
if denominato... | python | def get_R_det2(y_segment, y_avg, y_prime):
"""
takes in an array of y values, the mean of those values, and the array of y prime values.
returns R_det2
"""
numerator = sum((numpy.array(y_segment) - numpy.array(y_prime))**2)
denominator = sum((numpy.array(y_segment) - y_avg)**2)
if denominato... | [
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PmagPy/PmagPy | SPD/lib/lib_arai_plot_statistics.py | get_b_wiggle | def get_b_wiggle(x, y, y_int):
"""returns instantaneous slope from the ratio of NRM lost to TRM gained at the ith step"""
if x == 0:
b_wiggle = 0
else:
b_wiggle = old_div((y_int - y), x)
return b_wiggle | python | def get_b_wiggle(x, y, y_int):
"""returns instantaneous slope from the ratio of NRM lost to TRM gained at the ith step"""
if x == 0:
b_wiggle = 0
else:
b_wiggle = old_div((y_int - y), x)
return b_wiggle | [
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PmagPy/PmagPy | SPD/lib/lib_arai_plot_statistics.py | get_Z | def get_Z(x_segment, y_segment, x_int, y_int, slope):
"""
input: x_segment, y_segment, x_int, y_int, slope
output: Z (Arai plot zigzag parameter)
"""
Z = 0
first_time = True
for num, x in enumerate(x_segment):
b_wiggle = get_b_wiggle(x, y_segment[num], y_int)
z = old_div((x *... | python | def get_Z(x_segment, y_segment, x_int, y_int, slope):
"""
input: x_segment, y_segment, x_int, y_int, slope
output: Z (Arai plot zigzag parameter)
"""
Z = 0
first_time = True
for num, x in enumerate(x_segment):
b_wiggle = get_b_wiggle(x, y_segment[num], y_int)
z = old_div((x *... | [
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PmagPy/PmagPy | SPD/lib/lib_arai_plot_statistics.py | get_Zstar | def get_Zstar(x_segment, y_segment, x_int, y_int, slope, n):
"""
input: x_segment, y_segment, x_int, y_int, slope, n
output: Z* (Arai plot zigzag parameter (alternate))
"""
total = 0
first_time = True
for num, x in enumerate(x_segment):
b_wiggle = get_b_wiggle(x, y_segment[num], y_in... | python | def get_Zstar(x_segment, y_segment, x_int, y_int, slope, n):
"""
input: x_segment, y_segment, x_int, y_int, slope, n
output: Z* (Arai plot zigzag parameter (alternate))
"""
total = 0
first_time = True
for num, x in enumerate(x_segment):
b_wiggle = get_b_wiggle(x, y_segment[num], y_in... | [
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PmagPy/PmagPy | SPD/lib/lib_arai_plot_statistics.py | get_normed_points | def get_normed_points(point_array, norm): # good to go
"""
input: point_array, norm
output: normed array
"""
norm = float(norm)
#floated_array = []
#for p in point_array: # need to make sure each point is a float
#floated_array.append(float(p))
points = old_div(numpy.array(point_... | python | def get_normed_points(point_array, norm): # good to go
"""
input: point_array, norm
output: normed array
"""
norm = float(norm)
#floated_array = []
#for p in point_array: # need to make sure each point is a float
#floated_array.append(float(p))
points = old_div(numpy.array(point_... | [
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PmagPy/PmagPy | SPD/lib/lib_arai_plot_statistics.py | get_xy_array | def get_xy_array(x_segment, y_segment):
"""
input: x_segment, y_segment
output: xy_segment, ( format: [(x[0], y[0]), (x[1], y[1])]
"""
xy_array = []
for num, x in enumerate(x_segment):
xy_array.append((x, y_segment[num]))
return xy_array | python | def get_xy_array(x_segment, y_segment):
"""
input: x_segment, y_segment
output: xy_segment, ( format: [(x[0], y[0]), (x[1], y[1])]
"""
xy_array = []
for num, x in enumerate(x_segment):
xy_array.append((x, y_segment[num]))
return xy_array | [
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PmagPy/PmagPy | programs/stats.py | main | def main():
"""
NAME
stats.py
DEFINITION
calculates Gauss statistics for input data
SYNTAX
stats [command line options][< filename]
INPUT
single column of numbers
OPTIONS
-h prints help message and quits
-i interactive entry of file name
... | python | def main():
"""
NAME
stats.py
DEFINITION
calculates Gauss statistics for input data
SYNTAX
stats [command line options][< filename]
INPUT
single column of numbers
OPTIONS
-h prints help message and quits
-i interactive entry of file name
... | [
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stats.py
DEFINITION
calculates Gauss statistics for input data
SYNTAX
stats [command line options][< filename]
INPUT
single column of numbers
OPTIONS
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-i interactive entry of file name
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PmagPy/PmagPy | programs/magic_select.py | main | def main():
"""
NAME
magic_select.py
DESCRIPTION
picks out records and dictitem options saves to magic_special file
SYNTAX
magic_select.py [command line optins]
OPTIONS
-h prints help message and quits
-f FILE: specify input magic format file
-F FIL... | python | def main():
"""
NAME
magic_select.py
DESCRIPTION
picks out records and dictitem options saves to magic_special file
SYNTAX
magic_select.py [command line optins]
OPTIONS
-h prints help message and quits
-f FILE: specify input magic format file
-F FIL... | [
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magic_select.py
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picks out records and dictitem options saves to magic_special file
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magic_select.py [command line optins]
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PmagPy/PmagPy | programs/aniso_magic2.py | main | def main():
"""
NAME
aniso_magic.py
DESCRIPTION
plots anisotropy data with either bootstrap or hext ellipses
SYNTAX
aniso_magic.py [-h] [command line options]
OPTIONS
-h plots help message and quits
-usr USER: set the user name
-f AFILE, specify rmag... | python | def main():
"""
NAME
aniso_magic.py
DESCRIPTION
plots anisotropy data with either bootstrap or hext ellipses
SYNTAX
aniso_magic.py [-h] [command line options]
OPTIONS
-h plots help message and quits
-usr USER: set the user name
-f AFILE, specify rmag... | [
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plots anisotropy data with either bootstrap or hext ellipses
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aniso_magic.py [-h] [command line options]
OPTIONS
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-usr USER: set the user name
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PmagPy/PmagPy | programs/eqarea_ell.py | main | def main():
"""
NAME
eqarea_ell.py
DESCRIPTION
makes equal area projections from declination/inclination data
and plot ellipses
SYNTAX
eqarea_ell.py -h [command line options]
INPUT
takes space delimited Dec/Inc data
OPTIONS
-h prints help message ... | python | def main():
"""
NAME
eqarea_ell.py
DESCRIPTION
makes equal area projections from declination/inclination data
and plot ellipses
SYNTAX
eqarea_ell.py -h [command line options]
INPUT
takes space delimited Dec/Inc data
OPTIONS
-h prints help message ... | [
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makes equal area projections from declination/inclination data
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eqarea_ell.py -h [command line options]
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takes space delimited Dec/Inc data
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PmagPy/PmagPy | programs/di_eq.py | main | def main():
"""
NAME
di_eq.py
DESCRIPTION
converts dec, inc pairs to x,y pairs using equal area projection
NB: do only upper or lower hemisphere at a time: does not distinguish between up and down.
SYNTAX
di_eq.py [command line options] [< filename]
OPTIO... | python | def main():
"""
NAME
di_eq.py
DESCRIPTION
converts dec, inc pairs to x,y pairs using equal area projection
NB: do only upper or lower hemisphere at a time: does not distinguish between up and down.
SYNTAX
di_eq.py [command line options] [< filename]
OPTIO... | [
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di_eq.py
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converts dec, inc pairs to x,y pairs using equal area projection
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PmagPy/PmagPy | pmagpy/spline.py | spline_interpolate | def spline_interpolate(x1, y1, x2):
"""
Given a function at a set of points (x1, y1), interpolate to
evaluate it at points x2.
"""
sp = Spline(x1, y1)
return sp(x2) | python | def spline_interpolate(x1, y1, x2):
"""
Given a function at a set of points (x1, y1), interpolate to
evaluate it at points x2.
"""
sp = Spline(x1, y1)
return sp(x2) | [
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PmagPy/PmagPy | pmagpy/spline.py | logspline_interpolate | def logspline_interpolate(x1, y1, x2):
"""
Given a function at a set of points (x1, y1), interpolate to
evaluate it at points x2.
"""
sp = Spline(log(x1), log(y1))
return exp(sp(log(x2))) | python | def logspline_interpolate(x1, y1, x2):
"""
Given a function at a set of points (x1, y1), interpolate to
evaluate it at points x2.
"""
sp = Spline(log(x1), log(y1))
return exp(sp(log(x2))) | [
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PmagPy/PmagPy | pmagpy/spline.py | linear_interpolate | def linear_interpolate(x1, y1, x2):
"""
Given a function at a set of points (x1, y1), interpolate to
evaluate it at points x2.
"""
li = LinInt(x1, y1)
return li(x2) | python | def linear_interpolate(x1, y1, x2):
"""
Given a function at a set of points (x1, y1), interpolate to
evaluate it at points x2.
"""
li = LinInt(x1, y1)
return li(x2) | [
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PmagPy/PmagPy | pmagpy/spline.py | LinInt.call | def call(self, x):
"""
Evaluate the interpolant, assuming x is a scalar.
"""
# if out of range, return endpoint
if x <= self.x_vals[0]:
return self.y_vals[0]
if x >= self.x_vals[-1]:
return self.y_vals[-1]
pos = numpy.searchsorted(self.x_vals,... | python | def call(self, x):
"""
Evaluate the interpolant, assuming x is a scalar.
"""
# if out of range, return endpoint
if x <= self.x_vals[0]:
return self.y_vals[0]
if x >= self.x_vals[-1]:
return self.y_vals[-1]
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PmagPy/PmagPy | programs/aarm_magic.py | main | def main():
"""
NAME
aarm_magic.py
DESCRIPTION
Converts AARM data to best-fit tensor (6 elements plus sigma)
Original program ARMcrunch written to accomodate ARM anisotropy data
collected from 6 axial directions (+X,+Y,+Z,-X,-Y,-Z) using the
off-axis remanence ... | python | def main():
"""
NAME
aarm_magic.py
DESCRIPTION
Converts AARM data to best-fit tensor (6 elements plus sigma)
Original program ARMcrunch written to accomodate ARM anisotropy data
collected from 6 axial directions (+X,+Y,+Z,-X,-Y,-Z) using the
off-axis remanence ... | [
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aarm_magic.py
DESCRIPTION
Converts AARM data to best-fit tensor (6 elements plus sigma)
Original program ARMcrunch written to accomodate ARM anisotropy data
collected from 6 axial directions (+X,+Y,+Z,-X,-Y,-Z) using the
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PmagPy/PmagPy | programs/dmag_magic2.py | main | def main():
"""
NAME
dmag_magic2.py
DESCRIPTION
plots intensity decay curves for demagnetization experiments
SYNTAX
dmag_magic -h [command line options]
INPUT
takes magic formatted magic_measurements.txt files
OPTIONS
-h prints help message and quits
... | python | def main():
"""
NAME
dmag_magic2.py
DESCRIPTION
plots intensity decay curves for demagnetization experiments
SYNTAX
dmag_magic -h [command line options]
INPUT
takes magic formatted magic_measurements.txt files
OPTIONS
-h prints help message and quits
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dmag_magic2.py
DESCRIPTION
plots intensity decay curves for demagnetization experiments
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dmag_magic -h [command line options]
INPUT
takes magic formatted magic_measurements.txt files
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AttributeNames dmag_magic2. py
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AttributeNames dmag_magic2. py
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AttributeNames dmag_magic2. py
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PmagPy/PmagPy | programs/deprecated/mini_magic.py | main | def main():
"""
NAME
mini_magic.py
DESCRIPTION
converts the Yale minispin format to magic_measurements format files
SYNTAX
mini_magic.py [command line options]
OPTIONS
-h: prints the help message and quits.
-usr USER: identify user, default is ""
... | python | def main():
"""
NAME
mini_magic.py
DESCRIPTION
converts the Yale minispin format to magic_measurements format files
SYNTAX
mini_magic.py [command line options]
OPTIONS
-h: prints the help message and quits.
-usr USER: identify user, default is ""
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mini_magic.py
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converts the Yale minispin format to magic_measurements format files
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PmagPy/PmagPy | programs/deprecated/customize_criteria.py | main | def main():
"""
NAME
customize_criteria.py
NB: This program has been deprecated - use demag_gui or thellier_gui
to customize acceptance criteria - OR pandas from within a jupyter notebook
DESCRIPTION
Allows user to specify acceptance criteria, saves them in pmag_criteria... | python | def main():
"""
NAME
customize_criteria.py
NB: This program has been deprecated - use demag_gui or thellier_gui
to customize acceptance criteria - OR pandas from within a jupyter notebook
DESCRIPTION
Allows user to specify acceptance criteria, saves them in pmag_criteria... | [
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customize_criteria.py
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PmagPy/PmagPy | programs/thellier_gui.py | Arai_GUI.get_DIR | def get_DIR(self, WD=None):
"""
open dialog box for choosing a working directory
"""
if "-WD" in sys.argv and FIRST_RUN:
ind = sys.argv.index('-WD')
self.WD = sys.argv[ind + 1]
elif not WD: # if no arg was passed in for WD, make a dialog to choose one
... | python | def get_DIR(self, WD=None):
"""
open dialog box for choosing a working directory
"""
if "-WD" in sys.argv and FIRST_RUN:
ind = sys.argv.index('-WD')
self.WD = sys.argv[ind + 1]
elif not WD: # if no arg was passed in for WD, make a dialog to choose one
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PmagPy/PmagPy | programs/thellier_gui.py | Arai_GUI.Main_Frame | def Main_Frame(self):
"""
Build main frame od panel: buttons, etc.
choose the first specimen and display data
"""
#--------------------------------------------------------------------
# initialize first specimen in list as current specimen
#----------------------... | python | def Main_Frame(self):
"""
Build main frame od panel: buttons, etc.
choose the first specimen and display data
"""
#--------------------------------------------------------------------
# initialize first specimen in list as current specimen
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PmagPy/PmagPy | programs/thellier_gui.py | Arai_GUI.on_save_interpretation_button | def on_save_interpretation_button(self, event):
"""
save the current interpretation temporarily (not to a file)
"""
if "specimen_int_uT" not in self.Data[self.s]['pars']:
return
if 'deleted' in self.Data[self.s]['pars']:
self.Data[self.s]['pars'].pop('dele... | python | def on_save_interpretation_button(self, event):
"""
save the current interpretation temporarily (not to a file)
"""
if "specimen_int_uT" not in self.Data[self.s]['pars']:
return
if 'deleted' in self.Data[self.s]['pars']:
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PmagPy/PmagPy | programs/thellier_gui.py | Arai_GUI.on_delete_interpretation_button | def on_delete_interpretation_button(self, event):
"""
delete the current interpretation temporarily (not to a file)
"""
del self.Data[self.s]['pars']
self.Data[self.s]['pars'] = {}
self.Data[self.s]['pars']['deleted'] = True
self.Data[self.s]['pars']['lab_dc_fiel... | python | def on_delete_interpretation_button(self, event):
"""
delete the current interpretation temporarily (not to a file)
"""
del self.Data[self.s]['pars']
self.Data[self.s]['pars'] = {}
self.Data[self.s]['pars']['deleted'] = True
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PmagPy/PmagPy | programs/thellier_gui.py | Arai_GUI.write_acceptance_criteria_to_boxes | def write_acceptance_criteria_to_boxes(self):
"""
Update paleointensity statistics in acceptance criteria boxes.
(after changing temperature bounds or changing specimen)
"""
self.ignore_parameters, value = {}, ''
for crit_short_name in self.preferences['show_statistics_o... | python | def write_acceptance_criteria_to_boxes(self):
"""
Update paleointensity statistics in acceptance criteria boxes.
(after changing temperature bounds or changing specimen)
"""
self.ignore_parameters, value = {}, ''
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PmagPy/PmagPy | programs/thellier_gui.py | Arai_GUI.Add_text | def Add_text(self, s):
"""
Add text to measurement data window.
"""
self.logger.DeleteAllItems()
FONT_RATIO = self.GUI_RESOLUTION + (self.GUI_RESOLUTION - 1) * 5
if self.GUI_RESOLUTION > 1.1:
font1 = wx.Font(11, wx.SWISS, wx.NORMAL,
... | python | def Add_text(self, s):
"""
Add text to measurement data window.
"""
self.logger.DeleteAllItems()
FONT_RATIO = self.GUI_RESOLUTION + (self.GUI_RESOLUTION - 1) * 5
if self.GUI_RESOLUTION > 1.1:
font1 = wx.Font(11, wx.SWISS, wx.NORMAL,
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PmagPy/PmagPy | programs/thellier_gui.py | Arai_GUI.select_bounds_in_logger | def select_bounds_in_logger(self, index):
"""
sets index as the upper or lower bound of a fit based on what the other bound is and selects it in the logger. Requires 2 calls to completely update a interpretation. NOTE: Requires an interpretation to exist before it is called.
@param: index - inde... | python | def select_bounds_in_logger(self, index):
"""
sets index as the upper or lower bound of a fit based on what the other bound is and selects it in the logger. Requires 2 calls to completely update a interpretation. NOTE: Requires an interpretation to exist before it is called.
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PmagPy/PmagPy | programs/thellier_gui.py | Arai_GUI.create_menu | def create_menu(self):
"""
Create menu bar
"""
self.menubar = wx.MenuBar()
menu_preferences = wx.Menu()
m_preferences_apperance = menu_preferences.Append(
-1, "&Appearence preferences", "")
self.Bind(wx.EVT_MENU, self.on_menu_appearance_preferences,
... | python | def create_menu(self):
"""
Create menu bar
"""
self.menubar = wx.MenuBar()
menu_preferences = wx.Menu()
m_preferences_apperance = menu_preferences.Append(
-1, "&Appearence preferences", "")
self.Bind(wx.EVT_MENU, self.on_menu_appearance_preferences,
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PmagPy/PmagPy | programs/thellier_gui.py | Arai_GUI.update_selection | def update_selection(self):
"""
update figures and statistics windows with a new selection of specimen
"""
# clear all boxes
self.clear_boxes()
self.draw_figure(self.s)
# update temperature list
if self.Data[self.s]['T_or_MW'] == "T":
self.te... | python | def update_selection(self):
"""
update figures and statistics windows with a new selection of specimen
"""
# clear all boxes
self.clear_boxes()
self.draw_figure(self.s)
# update temperature list
if self.Data[self.s]['T_or_MW'] == "T":
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PmagPy/PmagPy | programs/thellier_gui.py | Arai_GUI.onSelect_specimen | def onSelect_specimen(self, event):
"""
update figures and text when a new specimen is selected
"""
new_s = self.specimens_box.GetValue()
if self.select_specimen(new_s):
self.update_selection()
else:
self.specimens_box.SetValue(self.s)
... | python | def onSelect_specimen(self, event):
"""
update figures and text when a new specimen is selected
"""
new_s = self.specimens_box.GetValue()
if self.select_specimen(new_s):
self.update_selection()
else:
self.specimens_box.SetValue(self.s)
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PmagPy/PmagPy | programs/thellier_gui.py | Arai_GUI.on_info_click | def on_info_click(self, event):
"""
Show popup info window when user clicks "?"
"""
def on_close(event, wind):
wind.Close()
wind.Destroy()
event.Skip()
wind = wx.PopupTransientWindow(self, wx.RAISED_BORDER)
if self.auto_save.GetValue():
... | python | def on_info_click(self, event):
"""
Show popup info window when user clicks "?"
"""
def on_close(event, wind):
wind.Close()
wind.Destroy()
event.Skip()
wind = wx.PopupTransientWindow(self, wx.RAISED_BORDER)
if self.auto_save.GetValue():
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PmagPy/PmagPy | programs/thellier_gui.py | Arai_GUI.on_prev_button | def on_prev_button(self, event):
"""
update figures and text when a previous button is selected
"""
if 'saved' not in self.Data[self.s]['pars'] or self.Data[self.s]['pars']['saved'] != True:
# check preferences
if self.auto_save.GetValue():
self.on... | python | def on_prev_button(self, event):
"""
update figures and text when a previous button is selected
"""
if 'saved' not in self.Data[self.s]['pars'] or self.Data[self.s]['pars']['saved'] != True:
# check preferences
if self.auto_save.GetValue():
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PmagPy/PmagPy | programs/thellier_gui.py | Arai_GUI.clear_boxes | def clear_boxes(self):
"""
Clear all boxes
"""
self.tmin_box.Clear()
self.tmin_box.SetItems(self.T_list)
self.tmin_box.SetSelection(-1)
self.tmax_box.Clear()
self.tmax_box.SetItems(self.T_list)
self.tmax_box.SetSelection(-1)
self.Blab_win... | python | def clear_boxes(self):
"""
Clear all boxes
"""
self.tmin_box.Clear()
self.tmin_box.SetItems(self.T_list)
self.tmin_box.SetSelection(-1)
self.tmax_box.Clear()
self.tmax_box.SetItems(self.T_list)
self.tmax_box.SetSelection(-1)
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PmagPy/PmagPy | programs/thellier_gui.py | Arai_GUI.read_preferences_file | def read_preferences_file(self):
"""
If json preferences file exists, read it in.
"""
user_data_dir = find_pmag_dir.find_user_data_dir("thellier_gui")
if not user_data_dir:
return {}
if os.path.exists(user_data_dir):
pref_file = os.path.join(user_d... | python | def read_preferences_file(self):
"""
If json preferences file exists, read it in.
"""
user_data_dir = find_pmag_dir.find_user_data_dir("thellier_gui")
if not user_data_dir:
return {}
if os.path.exists(user_data_dir):
pref_file = os.path.join(user_d... | [
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PmagPy/PmagPy | programs/thellier_gui.py | Arai_GUI.write_preferences_file | def write_preferences_file(self):
"""
Write json preferences file to (platform specific) user data directory,
or PmagPy directory if appdirs module is missing.
"""
user_data_dir = find_pmag_dir.find_user_data_dir("thellier_gui")
if not os.path.exists(user_data_dir):
... | python | def write_preferences_file(self):
"""
Write json preferences file to (platform specific) user data directory,
or PmagPy directory if appdirs module is missing.
"""
user_data_dir = find_pmag_dir.find_user_data_dir("thellier_gui")
if not os.path.exists(user_data_dir):
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PmagPy/PmagPy | programs/thellier_gui.py | Arai_GUI.on_menu_exit | def on_menu_exit(self, event):
"""
Runs whenever Thellier GUI exits
"""
if self.close_warning:
TEXT = "Data is not saved to a file yet!\nTo properly save your data:\n1) Analysis --> Save current interpretations to a redo file.\nor\n1) File --> Save MagIC tables.\n\n Press OK ... | python | def on_menu_exit(self, event):
"""
Runs whenever Thellier GUI exits
"""
if self.close_warning:
TEXT = "Data is not saved to a file yet!\nTo properly save your data:\n1) Analysis --> Save current interpretations to a redo file.\nor\n1) File --> Save MagIC tables.\n\n Press OK ... | [
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PmagPy/PmagPy | programs/thellier_gui.py | Arai_GUI.on_menu_previous_interpretation | def on_menu_previous_interpretation(self, event):
"""
Create and show the Open FileDialog for upload previous interpretation
input should be a valid "redo file":
[specimen name] [tmin(kelvin)] [tmax(kelvin)]
"""
save_current_specimen = self.s
dlg = wx.FileDialog(
... | python | def on_menu_previous_interpretation(self, event):
"""
Create and show the Open FileDialog for upload previous interpretation
input should be a valid "redo file":
[specimen name] [tmin(kelvin)] [tmax(kelvin)]
"""
save_current_specimen = self.s
dlg = wx.FileDialog(
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PmagPy/PmagPy | programs/thellier_gui.py | Arai_GUI.on_menu_criteria_file | def on_menu_criteria_file(self, event):
"""
read pmag_criteria.txt file
and open change criteria dialog
"""
if self.data_model == 3:
dlg = wx.FileDialog(
self, message="choose a file in MagIC Data Model 3.0 format",
defaultDir=self.WD,... | python | def on_menu_criteria_file(self, event):
"""
read pmag_criteria.txt file
and open change criteria dialog
"""
if self.data_model == 3:
dlg = wx.FileDialog(
self, message="choose a file in MagIC Data Model 3.0 format",
defaultDir=self.WD,... | [
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PmagPy/PmagPy | programs/thellier_gui.py | Arai_GUI.on_menu_criteria | def on_menu_criteria(self, event):
"""
Change acceptance criteria
and save it to the criteria file (data_model=2: pmag_criteria.txt; data_model=3: criteria.txt)
"""
dia = thellier_gui_dialogs.Criteria_Dialog(
None, self.acceptance_criteria, self.preferences, title='S... | python | def on_menu_criteria(self, event):
"""
Change acceptance criteria
and save it to the criteria file (data_model=2: pmag_criteria.txt; data_model=3: criteria.txt)
"""
dia = thellier_gui_dialogs.Criteria_Dialog(
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PmagPy/PmagPy | programs/thellier_gui.py | Arai_GUI.On_close_criteria_box | def On_close_criteria_box(self, dia):
"""
after criteria dialog window is closed.
Take the acceptance criteria values and update
self.acceptance_criteria
"""
criteria_list = list(self.acceptance_criteria.keys())
criteria_list.sort()
#---------------------... | python | def On_close_criteria_box(self, dia):
"""
after criteria dialog window is closed.
Take the acceptance criteria values and update
self.acceptance_criteria
"""
criteria_list = list(self.acceptance_criteria.keys())
criteria_list.sort()
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PmagPy/PmagPy | programs/thellier_gui.py | Arai_GUI.recalculate_satistics | def recalculate_satistics(self):
'''
update self.Data[specimen]['pars'] for all specimens.
'''
gframe = wx.BusyInfo(
"Re-calculating statistics for all specimens\n Please wait..", self)
for specimen in list(self.Data.keys()):
if 'pars' not in list(self.Da... | python | def recalculate_satistics(self):
'''
update self.Data[specimen]['pars'] for all specimens.
'''
gframe = wx.BusyInfo(
"Re-calculating statistics for all specimens\n Please wait..", self)
for specimen in list(self.Data.keys()):
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PmagPy/PmagPy | programs/thellier_gui.py | Arai_GUI.read_criteria_file | def read_criteria_file(self, criteria_file):
'''
read criteria file.
initialize self.acceptance_criteria
try to guess if averaging by sample or by site.
'''
if self.data_model == 3:
self.acceptance_criteria = pmag.initialize_acceptance_criteria(
... | python | def read_criteria_file(self, criteria_file):
'''
read criteria file.
initialize self.acceptance_criteria
try to guess if averaging by sample or by site.
'''
if self.data_model == 3:
self.acceptance_criteria = pmag.initialize_acceptance_criteria(
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PmagPy/PmagPy | programs/thellier_gui.py | Arai_GUI.on_menu_save_interpretation | def on_menu_save_interpretation(self, event):
'''
save interpretations to a redo file
'''
thellier_gui_redo_file = open(
os.path.join(self.WD, "thellier_GUI.redo"), 'w')
#--------------------------------------------------
# write interpretations to thellier... | python | def on_menu_save_interpretation(self, event):
'''
save interpretations to a redo file
'''
thellier_gui_redo_file = open(
os.path.join(self.WD, "thellier_GUI.redo"), 'w')
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PmagPy/PmagPy | programs/thellier_gui.py | Arai_GUI.on_menu_clear_interpretation | def on_menu_clear_interpretation(self, event):
'''
clear all current interpretations.
'''
# delete all previous interpretation
for sp in list(self.Data.keys()):
del self.Data[sp]['pars']
self.Data[sp]['pars'] = {}
self.Data[sp]['pars']['lab_d... | python | def on_menu_clear_interpretation(self, event):
'''
clear all current interpretations.
'''
# delete all previous interpretation
for sp in list(self.Data.keys()):
del self.Data[sp]['pars']
self.Data[sp]['pars'] = {}
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PmagPy/PmagPy | programs/thellier_gui.py | Arai_GUI.read_redo_file | def read_redo_file(self, redo_file):
"""
Read previous interpretation from a redo file
and update gui with the new interpretation
"""
self.GUI_log.write(
"-I- reading redo file and processing new temperature bounds")
self.redo_specimens = {}
# first de... | python | def read_redo_file(self, redo_file):
"""
Read previous interpretation from a redo file
and update gui with the new interpretation
"""
self.GUI_log.write(
"-I- reading redo file and processing new temperature bounds")
self.redo_specimens = {}
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PmagPy/PmagPy | programs/thellier_gui.py | Arai_GUI.on_menu_prepare_magic_results_tables | def on_menu_prepare_magic_results_tables(self, event):
"""
Menubar --> File --> Save MagIC tables
"""
# write a redo file
try:
self.on_menu_save_interpretation(None)
except Exception as ex:
print('-W-', ex)
pass
if self.data_mod... | python | def on_menu_prepare_magic_results_tables(self, event):
"""
Menubar --> File --> Save MagIC tables
"""
# write a redo file
try:
self.on_menu_save_interpretation(None)
except Exception as ex:
print('-W-', ex)
pass
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PmagPy/PmagPy | programs/thellier_gui.py | Arai_GUI.read_er_ages_file | def read_er_ages_file(self, path, ignore_lines_n, sort_by_these_names):
'''
read er_ages, sort it by site or sample (the header that is not empty)
and convert ages to calendar year
'''
DATA = {}
fin = open(path, 'r')
# ignore first lines
for i in range(ig... | python | def read_er_ages_file(self, path, ignore_lines_n, sort_by_these_names):
'''
read er_ages, sort it by site or sample (the header that is not empty)
and convert ages to calendar year
'''
DATA = {}
fin = open(path, 'r')
# ignore first lines
for i in range(ig... | [
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PmagPy/PmagPy | programs/thellier_gui.py | Arai_GUI.calculate_sample_mean | def calculate_sample_mean(self, Data_sample_or_site):
'''
Data_sample_or_site is a dictonary holding the samples_or_sites mean
Data_sample_or_site ={}
Data_sample_or_site[specimen]=B (in units of microT)
'''
pars = {}
tmp_B = []
for spec in list(Data_samp... | python | def calculate_sample_mean(self, Data_sample_or_site):
'''
Data_sample_or_site is a dictonary holding the samples_or_sites mean
Data_sample_or_site ={}
Data_sample_or_site[specimen]=B (in units of microT)
'''
pars = {}
tmp_B = []
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PmagPy/PmagPy | programs/thellier_gui.py | Arai_GUI.convert_ages_to_calendar_year | def convert_ages_to_calendar_year(self, er_ages_rec):
'''
convert all age units to calendar year
'''
if ("age" not in list(er_ages_rec.keys())) or (cb.is_null(er_ages_rec['age'], False)):
return(er_ages_rec)
if ("age_unit" not in list(er_ages_rec.keys())) or (cb.is_nu... | python | def convert_ages_to_calendar_year(self, er_ages_rec):
'''
convert all age units to calendar year
'''
if ("age" not in list(er_ages_rec.keys())) or (cb.is_null(er_ages_rec['age'], False)):
return(er_ages_rec)
if ("age_unit" not in list(er_ages_rec.keys())) or (cb.is_nu... | [
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PmagPy/PmagPy | programs/thellier_gui.py | Arai_GUI.get_new_T_PI_parameters | def get_new_T_PI_parameters(self, event):
"""
calcualte statisics when temperatures are selected
"""
# remember the last saved interpretation
if "saved" in list(self.pars.keys()):
if self.pars['saved']:
self.last_saved_pars = {}
for ke... | python | def get_new_T_PI_parameters(self, event):
"""
calcualte statisics when temperatures are selected
"""
# remember the last saved interpretation
if "saved" in list(self.pars.keys()):
if self.pars['saved']:
self.last_saved_pars = {}
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PmagPy/PmagPy | programs/thellier_gui.py | Arai_GUI.add_thellier_gui_criteria | def add_thellier_gui_criteria(self):
'''criteria used only in thellier gui
these criteria are not written to pmag_criteria.txt
'''
category = "thellier_gui"
for crit in ['sample_int_n_outlier_check', 'site_int_n_outlier_check']:
self.acceptance_criteria[crit] = {}
... | python | def add_thellier_gui_criteria(self):
'''criteria used only in thellier gui
these criteria are not written to pmag_criteria.txt
'''
category = "thellier_gui"
for crit in ['sample_int_n_outlier_check', 'site_int_n_outlier_check']:
self.acceptance_criteria[crit] = {}
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PmagPy/PmagPy | programs/thellier_gui.py | Arai_GUI.sortarai | def sortarai(self, datablock, s, Zdiff):
"""
sorts data block in to first_Z, first_I, etc.
"""
first_Z, first_I, zptrm_check, ptrm_check, ptrm_tail = [], [], [], [], []
field, phi, theta = "", "", ""
starthere = 0
Treat_I, Treat_Z, Treat_PZ, Treat_PI, Treat_M, Tr... | python | def sortarai(self, datablock, s, Zdiff):
"""
sorts data block in to first_Z, first_I, etc.
"""
first_Z, first_I, zptrm_check, ptrm_check, ptrm_tail = [], [], [], [], []
field, phi, theta = "", "", ""
starthere = 0
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PmagPy/PmagPy | programs/cart_dir.py | main | def main():
"""
NAME
cart_dir.py
DESCRIPTION
converts cartesian coordinates to geomagnetic elements
INPUT (COMMAND LINE ENTRY)
x1 x2 x3
if only two columns, assumes magnitude of unity
OUTPUT
declination inclination magnitude
SYNTAX
... | python | def main():
"""
NAME
cart_dir.py
DESCRIPTION
converts cartesian coordinates to geomagnetic elements
INPUT (COMMAND LINE ENTRY)
x1 x2 x3
if only two columns, assumes magnitude of unity
OUTPUT
declination inclination magnitude
SYNTAX
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PmagPy/PmagPy | programs/deprecated/susar4_asc_magic.py | main | def main():
"""
NAME
susar4-asc_magic.py
DESCRIPTION
converts ascii files generated by SUSAR ver.4.0 to MagIC formated
files for use with PmagPy plotting software
SYNTAX
susar4-asc_magic.py -h [command line options]
OPTIONS
-h: prints the help message and q... | python | def main():
"""
NAME
susar4-asc_magic.py
DESCRIPTION
converts ascii files generated by SUSAR ver.4.0 to MagIC formated
files for use with PmagPy plotting software
SYNTAX
susar4-asc_magic.py -h [command line options]
OPTIONS
-h: prints the help message and q... | [
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PmagPy/PmagPy | programs/histplot.py | main | def main():
"""
NAME
histplot.py
DESCRIPTION
makes histograms for data
OPTIONS
-h prints help message and quits
-f input file name
-b binsize
-fmt [svg,png,pdf,eps,jpg] specify format for image, default is svg
-sav save figure and quit
-F output ... | python | def main():
"""
NAME
histplot.py
DESCRIPTION
makes histograms for data
OPTIONS
-h prints help message and quits
-f input file name
-b binsize
-fmt [svg,png,pdf,eps,jpg] specify format for image, default is svg
-sav save figure and quit
-F output ... | [
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makes histograms for data
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PmagPy/PmagPy | pmagpy/command_line_extractor.py | extract_args | def extract_args(argv):
"""
take sys.argv that is used to call a command-line script and return a correctly split list of arguments
for example, this input: ["eqarea.py", "-f", "infile", "-F", "outfile", "-A"]
will return this output: [['f', 'infile'], ['F', 'outfile'], ['A']]
"""
string = " ".j... | python | def extract_args(argv):
"""
take sys.argv that is used to call a command-line script and return a correctly split list of arguments
for example, this input: ["eqarea.py", "-f", "infile", "-F", "outfile", "-A"]
will return this output: [['f', 'infile'], ['F', 'outfile'], ['A']]
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PmagPy/PmagPy | pmagpy/command_line_extractor.py | check_args | def check_args(arguments, data_frame):
"""
check arguments against a command_line_dataframe.
checks that:
all arguments are valid
all required arguments are present
default values are used where needed
"""
stripped_args = [a[0] for a in arguments]
df = data_frame.df
# first make ... | python | def check_args(arguments, data_frame):
"""
check arguments against a command_line_dataframe.
checks that:
all arguments are valid
all required arguments are present
default values are used where needed
"""
stripped_args = [a[0] for a in arguments]
df = data_frame.df
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PmagPy/PmagPy | dialogs/drop_down_menus3.py | Menus.InitUI | def InitUI(self):
"""
Initialize interface for drop down menu
"""
if self.data_type in ['orient', 'ages']:
belongs_to = []
else:
parent_table_name = self.parent_type + "s"
if parent_table_name in self.contribution.tables:
belong... | python | def InitUI(self):
"""
Initialize interface for drop down menu
"""
if self.data_type in ['orient', 'ages']:
belongs_to = []
else:
parent_table_name = self.parent_type + "s"
if parent_table_name in self.contribution.tables:
belong... | [
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PmagPy/PmagPy | dialogs/drop_down_menus3.py | Menus.add_drop_down | def add_drop_down(self, col_number, col_label):
"""
Add a correctly formatted drop-down-menu for given col_label,
if required or suggested.
Otherwise do nothing.
Parameters
----------
col_number : int
grid position at which to add a drop down menu... | python | def add_drop_down(self, col_number, col_label):
"""
Add a correctly formatted drop-down-menu for given col_label,
if required or suggested.
Otherwise do nothing.
Parameters
----------
col_number : int
grid position at which to add a drop down menu... | [
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PmagPy/PmagPy | dialogs/drop_down_menus3.py | Menus.add_method_drop_down | def add_method_drop_down(self, col_number, col_label):
"""
Add drop-down-menu options for magic_method_codes columns
"""
if self.data_type == 'ages':
method_list = self.contribution.vocab.age_methods
else:
method_list = self.contribution.vocab.age_methods.... | python | def add_method_drop_down(self, col_number, col_label):
"""
Add drop-down-menu options for magic_method_codes columns
"""
if self.data_type == 'ages':
method_list = self.contribution.vocab.age_methods
else:
method_list = self.contribution.vocab.age_methods.... | [
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PmagPy/PmagPy | dialogs/drop_down_menus3.py | Menus.on_left_click | def on_left_click(self, event, grid, choices):
"""
creates popup menu when user clicks on the column
if that column is in the list of choices that get a drop-down menu.
allows user to edit the column, but only from available values
"""
row, col = event.GetRow(), event.Get... | python | def on_left_click(self, event, grid, choices):
"""
creates popup menu when user clicks on the column
if that column is in the list of choices that get a drop-down menu.
allows user to edit the column, but only from available values
"""
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PmagPy/PmagPy | programs/di_tilt.py | main | def main():
"""
NAME
di_tilt.py
DESCRIPTION
rotates geographic coordinate dec, inc data to stratigraphic
coordinates using the dip and dip direction (strike+90, dip if dip to right of strike)
INPUT FORMAT
declination inclination dip_direction dip
SYNTAX
di_til... | python | def main():
"""
NAME
di_tilt.py
DESCRIPTION
rotates geographic coordinate dec, inc data to stratigraphic
coordinates using the dip and dip direction (strike+90, dip if dip to right of strike)
INPUT FORMAT
declination inclination dip_direction dip
SYNTAX
di_til... | [
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rotates geographic coordinate dec, inc data to stratigraphic
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declination inclination dip_direction dip
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PmagPy/PmagPy | programs/convert2unix.py | main | def main():
"""
NAME
convert2unix.py
DESCRIPTION
converts mac or dos formatted file to unix file in place
SYNTAX
convert2unix.py FILE
OPTIONS
-h prints help and quits
"""
if '-h' in sys.argv:
print(main.__doc__)
sys.exit()
... | python | def main():
"""
NAME
convert2unix.py
DESCRIPTION
converts mac or dos formatted file to unix file in place
SYNTAX
convert2unix.py FILE
OPTIONS
-h prints help and quits
"""
if '-h' in sys.argv:
print(main.__doc__)
sys.exit()
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PmagPy/PmagPy | programs/igrf.py | main | def main():
"""
NAME
igrf.py
DESCRIPTION
This program calculates igrf field values
using the routine of Malin and Barraclough (1981)
based on d/igrfs from 1900 to 2010.
between 1900 and 1000BCE, it uses CALS3K.4, ARCH3K.1
Prior to 1000BCE, it uses PFM9k or CALS10k-4b
Cal... | python | def main():
"""
NAME
igrf.py
DESCRIPTION
This program calculates igrf field values
using the routine of Malin and Barraclough (1981)
based on d/igrfs from 1900 to 2010.
between 1900 and 1000BCE, it uses CALS3K.4, ARCH3K.1
Prior to 1000BCE, it uses PFM9k or CALS10k-4b
Cal... | [
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PmagPy/PmagPy | programs/vgpmap_magic2.py | main | def main():
"""
NAME
vgpmap_magic.py
DESCRIPTION
makes a map of vgps and a95/dp,dm for site means in a pmag_results table
SYNTAX
vgpmap_magic.py [command line options]
OPTIONS
-h prints help and quits
-eye ELAT ELON [specify eyeball location], default is 9... | python | def main():
"""
NAME
vgpmap_magic.py
DESCRIPTION
makes a map of vgps and a95/dp,dm for site means in a pmag_results table
SYNTAX
vgpmap_magic.py [command line options]
OPTIONS
-h prints help and quits
-eye ELAT ELON [specify eyeball location], default is 9... | [
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vgpmap_magic.py
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makes a map of vgps and a95/dp,dm for site means in a pmag_results table
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vgpmap_magic.py [command line options]
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PmagPy/PmagPy | programs/gokent.py | main | def main():
"""
NAME
gokent.py
DESCRIPTION
calculates Kent parameters from dec inc data
INPUT FORMAT
takes dec/inc as first two columns in space delimited file
SYNTAX
gokent.py [options]
OPTIONS
-h prints help message and quits
-i for interactive f... | python | def main():
"""
NAME
gokent.py
DESCRIPTION
calculates Kent parameters from dec inc data
INPUT FORMAT
takes dec/inc as first two columns in space delimited file
SYNTAX
gokent.py [options]
OPTIONS
-h prints help message and quits
-i for interactive f... | [
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gokent.py
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calculates Kent parameters from dec inc data
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takes dec/inc as first two columns in space delimited file
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gokent.py [options]
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-i for interactive filename entry
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PmagPy/PmagPy | pmagpy/pmagplotlib.py | draw_figs | def draw_figs(FIGS):
"""
Can only be used if matplotlib backend is set to TKAgg
Does not play well with wxPython
Parameters
_________
FIGS : dictionary of figure names as keys and numbers as values
"""
is_win = True if sys.platform in ['win32', 'win64'] else False
if not is_win:
... | python | def draw_figs(FIGS):
"""
Can only be used if matplotlib backend is set to TKAgg
Does not play well with wxPython
Parameters
_________
FIGS : dictionary of figure names as keys and numbers as values
"""
is_win = True if sys.platform in ['win32', 'win64'] else False
if not is_win:
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PmagPy/PmagPy | pmagpy/pmagplotlib.py | delticks | def delticks(fig):
"""
deletes half the x-axis tick marks
Parameters
___________
fig : matplotlib figure number
"""
locs = fig.xaxis.get_ticklocs()
nlocs = np.delete(locs, list(range(0, len(locs), 2)))
fig.set_xticks(nlocs) | python | def delticks(fig):
"""
deletes half the x-axis tick marks
Parameters
___________
fig : matplotlib figure number
"""
locs = fig.xaxis.get_ticklocs()
nlocs = np.delete(locs, list(range(0, len(locs), 2)))
fig.set_xticks(nlocs) | [
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PmagPy/PmagPy | pmagpy/pmagplotlib.py | plot_init | def plot_init(fignum, w, h):
"""
initializes plot number fignum with width w and height h
Parameters
__________
fignum : matplotlib figure number
w : width
h : height
"""
global fig_x_pos, fig_y_pos, plt_num
dpi = 80
if isServer:
dpi = 240
# plt.ion()
plt_num ... | python | def plot_init(fignum, w, h):
"""
initializes plot number fignum with width w and height h
Parameters
__________
fignum : matplotlib figure number
w : width
h : height
"""
global fig_x_pos, fig_y_pos, plt_num
dpi = 80
if isServer:
dpi = 240
# plt.ion()
plt_num ... | [
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PmagPy/PmagPy | pmagpy/pmagplotlib.py | plot3d_init | def plot3d_init(fignum):
"""
initializes 3D plot
"""
from mpl_toolkits.mplot3d import Axes3D
fig = plt.figure(fignum)
ax = fig.add_subplot(111, projection='3d')
return ax | python | def plot3d_init(fignum):
"""
initializes 3D plot
"""
from mpl_toolkits.mplot3d import Axes3D
fig = plt.figure(fignum)
ax = fig.add_subplot(111, projection='3d')
return ax | [
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