repository_name stringlengths 5 67 | func_path_in_repository stringlengths 4 234 | func_name stringlengths 0 314 | whole_func_string stringlengths 52 3.87M | language stringclasses 6
values | func_code_string stringlengths 39 1.84M | func_code_tokens listlengths 15 672k | func_documentation_string stringlengths 1 47.2k | func_documentation_tokens listlengths 1 3.92k | split_name stringclasses 1
value | func_code_url stringlengths 85 339 |
|---|---|---|---|---|---|---|---|---|---|---|
gem/oq-engine | openquake/hmtk/plotting/seismicity/catalogue_plots.py | plot_depth_histogram | def plot_depth_histogram(
catalogue, bin_width,
normalisation=False, bootstrap=None, filename=None,
figure_size=(8, 6), filetype='png', dpi=300, ax=None):
"""
Creates a histogram of the depths in the catalogue
:param catalogue:
Earthquake catalogue as instance of :class:
... | python | def plot_depth_histogram(
catalogue, bin_width,
normalisation=False, bootstrap=None, filename=None,
figure_size=(8, 6), filetype='png', dpi=300, ax=None):
if ax is None:
fig, ax = plt.subplots(figsize=figure_size)
else:
fig = ax.get_figure()
if len(catalogue... | [
"def",
"plot_depth_histogram",
"(",
"catalogue",
",",
"bin_width",
",",
"normalisation",
"=",
"False",
",",
"bootstrap",
"=",
"None",
",",
"filename",
"=",
"None",
",",
"figure_size",
"=",
"(",
"8",
",",
"6",
")",
",",
"filetype",
"=",
"'png'",
",",
"dpi... | Creates a histogram of the depths in the catalogue
:param catalogue:
Earthquake catalogue as instance of :class:
openquake.hmtk.seismicity.catalogue.Catalogue
:param float bin_width:
Width of the histogram for the depth bins
:param bool normalisation:
Normalise the histogram... | [
"Creates",
"a",
"histogram",
"of",
"the",
"depths",
"in",
"the",
"catalogue"
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/hmtk/plotting/seismicity/catalogue_plots.py#L117-L158 |
gem/oq-engine | openquake/hmtk/plotting/seismicity/catalogue_plots.py | plot_magnitude_depth_density | def plot_magnitude_depth_density(
catalogue, mag_int, depth_int,
logscale=False, normalisation=False, bootstrap=None, filename=None,
figure_size=(8, 6), filetype='png', dpi=300, ax=None):
"""
Creates a density plot of the magnitude and depth distribution
:param catalogue:
Ea... | python | def plot_magnitude_depth_density(
catalogue, mag_int, depth_int,
logscale=False, normalisation=False, bootstrap=None, filename=None,
figure_size=(8, 6), filetype='png', dpi=300, ax=None):
if len(catalogue.data['depth']) == 0:
raise ValueError('No depths reported in catalogue!'... | [
"def",
"plot_magnitude_depth_density",
"(",
"catalogue",
",",
"mag_int",
",",
"depth_int",
",",
"logscale",
"=",
"False",
",",
"normalisation",
"=",
"False",
",",
"bootstrap",
"=",
"None",
",",
"filename",
"=",
"None",
",",
"figure_size",
"=",
"(",
"8",
",",... | Creates a density plot of the magnitude and depth distribution
:param catalogue:
Earthquake catalogue as instance of :class:
openquake.hmtk.seismicity.catalogue.Catalogue
:param float mag_int:
Width of the histogram for the magnitude bins
:param float depth_int:
Width of the... | [
"Creates",
"a",
"density",
"plot",
"of",
"the",
"magnitude",
"and",
"depth",
"distribution"
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/hmtk/plotting/seismicity/catalogue_plots.py#L161-L218 |
gem/oq-engine | openquake/hmtk/plotting/seismicity/catalogue_plots.py | plot_magnitude_time_scatter | def plot_magnitude_time_scatter(
catalogue, plot_error=False, fmt_string='o', filename=None,
figure_size=(8, 6), filetype='png', dpi=300, ax=None):
"""
Creates a simple scatter plot of magnitude with time
:param catalogue:
Earthquake catalogue as instance of :class:
openquak... | python | def plot_magnitude_time_scatter(
catalogue, plot_error=False, fmt_string='o', filename=None,
figure_size=(8, 6), filetype='png', dpi=300, ax=None):
if ax is None:
fig, ax = plt.subplots(figsize=figure_size)
else:
fig = ax.get_figure()
dtime = catalogue.get_decimal_time(... | [
"def",
"plot_magnitude_time_scatter",
"(",
"catalogue",
",",
"plot_error",
"=",
"False",
",",
"fmt_string",
"=",
"'o'",
",",
"filename",
"=",
"None",
",",
"figure_size",
"=",
"(",
"8",
",",
"6",
")",
",",
"filetype",
"=",
"'png'",
",",
"dpi",
"=",
"300",... | Creates a simple scatter plot of magnitude with time
:param catalogue:
Earthquake catalogue as instance of :class:
openquake.hmtk.seismicity.catalogue.Catalogue
:param bool plot_error:
Choose to plot error bars (True) or not (False)
:param str fmt_string:
Symbology of plot | [
"Creates",
"a",
"simple",
"scatter",
"plot",
"of",
"magnitude",
"with",
"time"
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/hmtk/plotting/seismicity/catalogue_plots.py#L221-L258 |
gem/oq-engine | openquake/hmtk/plotting/seismicity/catalogue_plots.py | plot_magnitude_time_density | def plot_magnitude_time_density(
catalogue, mag_int, time_int, completeness=None,
normalisation=False, logscale=True, bootstrap=None, xlim=[], ylim=[],
filename=None, figure_size=(8, 6), filetype='png', dpi=300, ax=None):
"""
Creates a plot of magnitude-time density
:param catalogue... | python | def plot_magnitude_time_density(
catalogue, mag_int, time_int, completeness=None,
normalisation=False, logscale=True, bootstrap=None, xlim=[], ylim=[],
filename=None, figure_size=(8, 6), filetype='png', dpi=300, ax=None):
if ax is None:
fig, ax = plt.subplots(figsize=figure_size... | [
"def",
"plot_magnitude_time_density",
"(",
"catalogue",
",",
"mag_int",
",",
"time_int",
",",
"completeness",
"=",
"None",
",",
"normalisation",
"=",
"False",
",",
"logscale",
"=",
"True",
",",
"bootstrap",
"=",
"None",
",",
"xlim",
"=",
"[",
"]",
",",
"yl... | Creates a plot of magnitude-time density
:param catalogue:
Earthquake catalogue as instance of :class:
openquake.hmtk.seismicity.catalogue.Catalogue
:param float mag_int:
Width of the histogram for the magnitude bins
:param float time_int:
Width of the histogram for the time... | [
"Creates",
"a",
"plot",
"of",
"magnitude",
"-",
"time",
"density"
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/hmtk/plotting/seismicity/catalogue_plots.py#L261-L342 |
gem/oq-engine | openquake/hmtk/plotting/seismicity/catalogue_plots.py | _plot_completeness | def _plot_completeness(ax, comw, start_time, end_time):
'''
Adds completeness intervals to a plot
'''
comw = np.array(comw)
comp = np.column_stack([np.hstack([end_time, comw[:, 0], start_time]),
np.hstack([comw[0, 1], comw[:, 1], comw[-1, 1]])])
ax.step(comp[:-1, 0], ... | python | def _plot_completeness(ax, comw, start_time, end_time):
comw = np.array(comw)
comp = np.column_stack([np.hstack([end_time, comw[:, 0], start_time]),
np.hstack([comw[0, 1], comw[:, 1], comw[-1, 1]])])
ax.step(comp[:-1, 0], comp[1:, 1], linestyle='-',
where="post",... | [
"def",
"_plot_completeness",
"(",
"ax",
",",
"comw",
",",
"start_time",
",",
"end_time",
")",
":",
"comw",
"=",
"np",
".",
"array",
"(",
"comw",
")",
"comp",
"=",
"np",
".",
"column_stack",
"(",
"[",
"np",
".",
"hstack",
"(",
"[",
"end_time",
",",
... | Adds completeness intervals to a plot | [
"Adds",
"completeness",
"intervals",
"to",
"a",
"plot"
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/hmtk/plotting/seismicity/catalogue_plots.py#L345-L353 |
gem/oq-engine | openquake/hmtk/plotting/seismicity/catalogue_plots.py | get_completeness_adjusted_table | def get_completeness_adjusted_table(catalogue, completeness, dmag,
offset=1.0E-5, end_year=None, plot=False,
figure_size=(8, 6), filename=None,
filetype='png', dpi=300, ax=None):
"""
Counts the number of ... | python | def get_completeness_adjusted_table(catalogue, completeness, dmag,
offset=1.0E-5, end_year=None, plot=False,
figure_size=(8, 6), filename=None,
filetype='png', dpi=300, ax=None):
if not end_year:
... | [
"def",
"get_completeness_adjusted_table",
"(",
"catalogue",
",",
"completeness",
",",
"dmag",
",",
"offset",
"=",
"1.0E-5",
",",
"end_year",
"=",
"None",
",",
"plot",
"=",
"False",
",",
"figure_size",
"=",
"(",
"8",
",",
"6",
")",
",",
"filename",
"=",
"... | Counts the number of earthquakes in each magnitude bin and normalises
the rate to annual rates, taking into account the completeness | [
"Counts",
"the",
"number",
"of",
"earthquakes",
"in",
"each",
"magnitude",
"bin",
"and",
"normalises",
"the",
"rate",
"to",
"annual",
"rates",
"taking",
"into",
"account",
"the",
"completeness"
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/hmtk/plotting/seismicity/catalogue_plots.py#L356-L417 |
gem/oq-engine | openquake/hmtk/plotting/seismicity/catalogue_plots.py | plot_observed_recurrence | def plot_observed_recurrence(
catalogue, completeness, dmag, end_year=None, filename=None,
figure_size=(8, 6), filetype='png', dpi=300, ax=None):
"""
Plots the observed recurrence taking into account the completeness
"""
# Get completeness adjusted recurrence table
if isinstance(comp... | python | def plot_observed_recurrence(
catalogue, completeness, dmag, end_year=None, filename=None,
figure_size=(8, 6), filetype='png', dpi=300, ax=None):
if isinstance(completeness, float):
completeness = np.array([[np.min(catalogue.data['year']),
... | [
"def",
"plot_observed_recurrence",
"(",
"catalogue",
",",
"completeness",
",",
"dmag",
",",
"end_year",
"=",
"None",
",",
"filename",
"=",
"None",
",",
"figure_size",
"=",
"(",
"8",
",",
"6",
")",
",",
"filetype",
"=",
"'png'",
",",
"dpi",
"=",
"300",
... | Plots the observed recurrence taking into account the completeness | [
"Plots",
"the",
"observed",
"recurrence",
"taking",
"into",
"account",
"the",
"completeness"
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/hmtk/plotting/seismicity/catalogue_plots.py#L420-L452 |
gem/oq-engine | openquake/hmtk/strain/geodetic_strain.py | GeodeticStrain.get_secondary_strain_data | def get_secondary_strain_data(self, strain_data=None):
'''
Calculate the following and add to data dictionary:
1) 2nd invarient of strain
2) Dilatation rate
3) e1h and e2h
4) err
:param dict strain_data:
Strain data dictionary (as described) - will ov... | python | def get_secondary_strain_data(self, strain_data=None):
if strain_data:
self.data = strain_data
if not isinstance(self.data, dict):
raise ValueError('Strain data not input or incorrectly formatted')
for essential_key in DATA_VARIABLES:
if es... | [
"def",
"get_secondary_strain_data",
"(",
"self",
",",
"strain_data",
"=",
"None",
")",
":",
"if",
"strain_data",
":",
"self",
".",
"data",
"=",
"strain_data",
"if",
"not",
"isinstance",
"(",
"self",
".",
"data",
",",
"dict",
")",
":",
"raise",
"ValueError"... | Calculate the following and add to data dictionary:
1) 2nd invarient of strain
2) Dilatation rate
3) e1h and e2h
4) err
:param dict strain_data:
Strain data dictionary (as described) - will overwrite current
data if input | [
"Calculate",
"the",
"following",
"and",
"add",
"to",
"data",
"dictionary",
":",
"1",
")",
"2nd",
"invarient",
"of",
"strain",
"2",
")",
"Dilatation",
"rate",
"3",
")",
"e1h",
"and",
"e2h",
"4",
")",
"err"
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/hmtk/strain/geodetic_strain.py#L89-L135 |
gem/oq-engine | openquake/hmtk/strain/geodetic_strain.py | GeodeticStrain.get_number_observations | def get_number_observations(self):
'''
Returns the number of observations in the data file
'''
if isinstance(self.data, dict) and ('exx' in self.data.keys()):
return len(self.data['exx'])
else:
return 0 | python | def get_number_observations(self):
if isinstance(self.data, dict) and ('exx' in self.data.keys()):
return len(self.data['exx'])
else:
return 0 | [
"def",
"get_number_observations",
"(",
"self",
")",
":",
"if",
"isinstance",
"(",
"self",
".",
"data",
",",
"dict",
")",
"and",
"(",
"'exx'",
"in",
"self",
".",
"data",
".",
"keys",
"(",
")",
")",
":",
"return",
"len",
"(",
"self",
".",
"data",
"["... | Returns the number of observations in the data file | [
"Returns",
"the",
"number",
"of",
"observations",
"in",
"the",
"data",
"file"
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/hmtk/strain/geodetic_strain.py#L137-L144 |
gem/oq-engine | openquake/commands/plot_lc.py | plot_lc | def plot_lc(calc_id, aid=None):
"""
Plot loss curves given a calculation id and an asset ordinal.
"""
# read the hazard data
dstore = util.read(calc_id)
dset = dstore['agg_curves-rlzs']
if aid is None: # plot the global curves
plt = make_figure(dset.attrs['return_periods'], dset.val... | python | def plot_lc(calc_id, aid=None):
dstore = util.read(calc_id)
dset = dstore['agg_curves-rlzs']
if aid is None:
plt = make_figure(dset.attrs['return_periods'], dset.value)
else:
sys.exit('Not implemented yet')
plt.show() | [
"def",
"plot_lc",
"(",
"calc_id",
",",
"aid",
"=",
"None",
")",
":",
"# read the hazard data",
"dstore",
"=",
"util",
".",
"read",
"(",
"calc_id",
")",
"dset",
"=",
"dstore",
"[",
"'agg_curves-rlzs'",
"]",
"if",
"aid",
"is",
"None",
":",
"# plot the global... | Plot loss curves given a calculation id and an asset ordinal. | [
"Plot",
"loss",
"curves",
"given",
"a",
"calculation",
"id",
"and",
"an",
"asset",
"ordinal",
"."
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/commands/plot_lc.py#L41-L52 |
gem/oq-engine | openquake/hazardlib/gsim/nshmp_2014.py | nga_west2_epistemic_adjustment | def nga_west2_epistemic_adjustment(magnitude, distance):
"""
Applies the "average" adjustment factor for epistemic uncertainty
as defined in Table 17 of Petersen et al., (2014)::
| R < 10. | 10.0 <= R < 30.0 | R >= 30.0
-----------------------------------------------------------... | python | def nga_west2_epistemic_adjustment(magnitude, distance):
if magnitude < 6.0:
adjustment = 0.22 * np.ones_like(distance)
adjustment[distance < 10.0] = 0.37
elif magnitude >= 7.0:
adjustment = 0.36 * np.ones_like(distance)
adjustment[distance < 10.0] = 0.40
adjustment[... | [
"def",
"nga_west2_epistemic_adjustment",
"(",
"magnitude",
",",
"distance",
")",
":",
"if",
"magnitude",
"<",
"6.0",
":",
"adjustment",
"=",
"0.22",
"*",
"np",
".",
"ones_like",
"(",
"distance",
")",
"adjustment",
"[",
"distance",
"<",
"10.0",
"]",
"=",
"0... | Applies the "average" adjustment factor for epistemic uncertainty
as defined in Table 17 of Petersen et al., (2014)::
| R < 10. | 10.0 <= R < 30.0 | R >= 30.0
-----------------------------------------------------------
M < 6.0 | 0.37 | 0.22 | 0.22
6... | [
"Applies",
"the",
"average",
"adjustment",
"factor",
"for",
"epistemic",
"uncertainty",
"as",
"defined",
"in",
"Table",
"17",
"of",
"Petersen",
"et",
"al",
".",
"(",
"2014",
")",
"::"
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/hazardlib/gsim/nshmp_2014.py#L75-L96 |
gem/oq-engine | openquake/hazardlib/gsim/nshmp_2014.py | get_weighted_poes | def get_weighted_poes(gsim, sctx, rctx, dctx, imt, imls, truncation_level,
weighting=DEFAULT_WEIGHTING):
"""
This function implements the NGA West 2 GMPE epistemic uncertainty
adjustment factor without re-calculating the actual GMPE each time.
:param gsim:
Instance of the ... | python | def get_weighted_poes(gsim, sctx, rctx, dctx, imt, imls, truncation_level,
weighting=DEFAULT_WEIGHTING):
if truncation_level is not None and truncation_level < 0:
raise ValueError('truncation level must be zero, positive number '
'or None')
gsim._check... | [
"def",
"get_weighted_poes",
"(",
"gsim",
",",
"sctx",
",",
"rctx",
",",
"dctx",
",",
"imt",
",",
"imls",
",",
"truncation_level",
",",
"weighting",
"=",
"DEFAULT_WEIGHTING",
")",
":",
"if",
"truncation_level",
"is",
"not",
"None",
"and",
"truncation_level",
... | This function implements the NGA West 2 GMPE epistemic uncertainty
adjustment factor without re-calculating the actual GMPE each time.
:param gsim:
Instance of the GMPE
:param list weighting:
Weightings as a list of tuples of (weight, number standard deviations
of the epistemic unce... | [
"This",
"function",
"implements",
"the",
"NGA",
"West",
"2",
"GMPE",
"epistemic",
"uncertainty",
"adjustment",
"factor",
"without",
"re",
"-",
"calculating",
"the",
"actual",
"GMPE",
"each",
"time",
"."
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/hazardlib/gsim/nshmp_2014.py#L102-L146 |
gem/oq-engine | openquake/hazardlib/gsim/nshmp_2014.py | AtkinsonMacias2009NSHMP2014.get_mean_and_stddevs | def get_mean_and_stddevs(self, sctx, rctx, dctx, imt, stddev_types):
"""
See :meth:`superclass method
<.base.GroundShakingIntensityModel.get_mean_and_stddevs>`
for spec of input and result values.
"""
# Get original mean and standard deviations
mean, stddevs = sup... | python | def get_mean_and_stddevs(self, sctx, rctx, dctx, imt, stddev_types):
mean, stddevs = super().get_mean_and_stddevs(
sctx, rctx, dctx, imt, stddev_types)
cff = SInterCan15Mid.SITE_COEFFS[imt]
mean += np.log(cff['mf'])
return mean, stddevs | [
"def",
"get_mean_and_stddevs",
"(",
"self",
",",
"sctx",
",",
"rctx",
",",
"dctx",
",",
"imt",
",",
"stddev_types",
")",
":",
"# Get original mean and standard deviations",
"mean",
",",
"stddevs",
"=",
"super",
"(",
")",
".",
"get_mean_and_stddevs",
"(",
"sctx",... | See :meth:`superclass method
<.base.GroundShakingIntensityModel.get_mean_and_stddevs>`
for spec of input and result values. | [
"See",
":",
"meth",
":",
"superclass",
"method",
"<",
".",
"base",
".",
"GroundShakingIntensityModel",
".",
"get_mean_and_stddevs",
">",
"for",
"spec",
"of",
"input",
"and",
"result",
"values",
"."
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/hazardlib/gsim/nshmp_2014.py#L61-L72 |
gem/oq-engine | openquake/hazardlib/gsim/nshmp_2014.py | AbrahamsonEtAl2014NSHMPUpper.get_mean_and_stddevs | def get_mean_and_stddevs(self, sctx, rctx, dctx, imt, stddev_types):
"""
See :meth:`superclass method
<.base.GroundShakingIntensityModel.get_mean_and_stddevs>`
for spec of input and result values.
"""
# Get original mean and standard deviations
mean, stddevs = sup... | python | def get_mean_and_stddevs(self, sctx, rctx, dctx, imt, stddev_types):
mean, stddevs = super().get_mean_and_stddevs(
sctx, rctx, dctx, imt, stddev_types)
return mean + nga_west2_epistemic_adjustment(rctx.mag, dctx.rrup),\
stddevs | [
"def",
"get_mean_and_stddevs",
"(",
"self",
",",
"sctx",
",",
"rctx",
",",
"dctx",
",",
"imt",
",",
"stddev_types",
")",
":",
"# Get original mean and standard deviations",
"mean",
",",
"stddevs",
"=",
"super",
"(",
")",
".",
"get_mean_and_stddevs",
"(",
"sctx",... | See :meth:`superclass method
<.base.GroundShakingIntensityModel.get_mean_and_stddevs>`
for spec of input and result values. | [
"See",
":",
"meth",
":",
"superclass",
"method",
"<",
".",
"base",
".",
"GroundShakingIntensityModel",
".",
"get_mean_and_stddevs",
">",
"for",
"spec",
"of",
"input",
"and",
"result",
"values",
"."
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/hazardlib/gsim/nshmp_2014.py#L154-L166 |
gem/oq-engine | openquake/hazardlib/gsim/nshmp_2014.py | AbrahamsonEtAl2014NSHMPMean.get_poes | def get_poes(self, sctx, rctx, dctx, imt, imls, truncation_level):
"""
Adapts the original `get_poes()` from the :class:
openquake.hazardlib.gsim.base.GMPE to call a function that take the
weighted sum of the PoEs from the epistemic uncertainty adjustment
"""
return get_w... | python | def get_poes(self, sctx, rctx, dctx, imt, imls, truncation_level):
return get_weighted_poes(self, sctx, rctx, dctx, imt, imls,
truncation_level) | [
"def",
"get_poes",
"(",
"self",
",",
"sctx",
",",
"rctx",
",",
"dctx",
",",
"imt",
",",
"imls",
",",
"truncation_level",
")",
":",
"return",
"get_weighted_poes",
"(",
"self",
",",
"sctx",
",",
"rctx",
",",
"dctx",
",",
"imt",
",",
"imls",
",",
"trunc... | Adapts the original `get_poes()` from the :class:
openquake.hazardlib.gsim.base.GMPE to call a function that take the
weighted sum of the PoEs from the epistemic uncertainty adjustment | [
"Adapts",
"the",
"original",
"get_poes",
"()",
"from",
"the",
":",
"class",
":",
"openquake",
".",
"hazardlib",
".",
"gsim",
".",
"base",
".",
"GMPE",
"to",
"call",
"a",
"function",
"that",
"take",
"the",
"weighted",
"sum",
"of",
"the",
"PoEs",
"from",
... | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/hazardlib/gsim/nshmp_2014.py#L194-L201 |
gem/oq-engine | openquake/commonlib/shapefileparser.py | register_fields | def register_fields(w):
"""
Register shapefile fields.
"""
PARAMS_LIST = [BASE_PARAMS, GEOMETRY_PARAMS, MFD_PARAMS]
for PARAMS in PARAMS_LIST:
for _, param, dtype in PARAMS:
w.field(param, fieldType=dtype, size=FIELD_SIZE)
PARAMS_LIST = [
RATE_PARAMS, STRIKE_PARAMS, ... | python | def register_fields(w):
PARAMS_LIST = [BASE_PARAMS, GEOMETRY_PARAMS, MFD_PARAMS]
for PARAMS in PARAMS_LIST:
for _, param, dtype in PARAMS:
w.field(param, fieldType=dtype, size=FIELD_SIZE)
PARAMS_LIST = [
RATE_PARAMS, STRIKE_PARAMS, DIP_PARAMS, RAKE_PARAMS, NPW_PARAMS,
... | [
"def",
"register_fields",
"(",
"w",
")",
":",
"PARAMS_LIST",
"=",
"[",
"BASE_PARAMS",
",",
"GEOMETRY_PARAMS",
",",
"MFD_PARAMS",
"]",
"for",
"PARAMS",
"in",
"PARAMS_LIST",
":",
"for",
"_",
",",
"param",
",",
"dtype",
"in",
"PARAMS",
":",
"w",
".",
"field... | Register shapefile fields. | [
"Register",
"shapefile",
"fields",
"."
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/commonlib/shapefileparser.py#L86-L103 |
gem/oq-engine | openquake/commonlib/shapefileparser.py | expand_src_param | def expand_src_param(values, shp_params):
"""
Expand hazardlib source attribute (defined through list of values)
into dictionary of shapefile parameters.
"""
if values is None:
return dict([(key, None) for key, _ in shp_params])
else:
num_values = len(values)
return dict(... | python | def expand_src_param(values, shp_params):
if values is None:
return dict([(key, None) for key, _ in shp_params])
else:
num_values = len(values)
return dict(
[(key, float(values[i]) if i < num_values else None)
for i, (key, _) in enumerate(shp_params)]) | [
"def",
"expand_src_param",
"(",
"values",
",",
"shp_params",
")",
":",
"if",
"values",
"is",
"None",
":",
"return",
"dict",
"(",
"[",
"(",
"key",
",",
"None",
")",
"for",
"key",
",",
"_",
"in",
"shp_params",
"]",
")",
"else",
":",
"num_values",
"=",
... | Expand hazardlib source attribute (defined through list of values)
into dictionary of shapefile parameters. | [
"Expand",
"hazardlib",
"source",
"attribute",
"(",
"defined",
"through",
"list",
"of",
"values",
")",
"into",
"dictionary",
"of",
"shapefile",
"parameters",
"."
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/commonlib/shapefileparser.py#L106-L117 |
gem/oq-engine | openquake/commonlib/shapefileparser.py | extract_source_params | def extract_source_params(src):
"""
Extract params from source object.
"""
tags = get_taglist(src)
data = []
for key, param, vtype in BASE_PARAMS:
if key in src.attrib:
if vtype == "c":
data.append((param, src.attrib[key]))
elif vtype == "f":
... | python | def extract_source_params(src):
tags = get_taglist(src)
data = []
for key, param, vtype in BASE_PARAMS:
if key in src.attrib:
if vtype == "c":
data.append((param, src.attrib[key]))
elif vtype == "f":
data.append((param, float(src.attrib[ke... | [
"def",
"extract_source_params",
"(",
"src",
")",
":",
"tags",
"=",
"get_taglist",
"(",
"src",
")",
"data",
"=",
"[",
"]",
"for",
"key",
",",
"param",
",",
"vtype",
"in",
"BASE_PARAMS",
":",
"if",
"key",
"in",
"src",
".",
"attrib",
":",
"if",
"vtype",... | Extract params from source object. | [
"Extract",
"params",
"from",
"source",
"object",
"."
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/commonlib/shapefileparser.py#L120-L143 |
gem/oq-engine | openquake/commonlib/shapefileparser.py | parse_complex_fault_geometry | def parse_complex_fault_geometry(node):
"""
Parses a complex fault geometry node returning both the attributes and
parameters in a dictionary
"""
assert "complexFaultGeometry" in node.tag
# Get general attributes
geometry = {"intermediateEdges": []}
for subnode in node:
crds = su... | python | def parse_complex_fault_geometry(node):
assert "complexFaultGeometry" in node.tag
geometry = {"intermediateEdges": []}
for subnode in node:
crds = subnode.nodes[0].nodes[0].text
if "faultTopEdge" in subnode.tag:
geometry["faultTopEdge"] = numpy.array(
[[... | [
"def",
"parse_complex_fault_geometry",
"(",
"node",
")",
":",
"assert",
"\"complexFaultGeometry\"",
"in",
"node",
".",
"tag",
"# Get general attributes",
"geometry",
"=",
"{",
"\"intermediateEdges\"",
":",
"[",
"]",
"}",
"for",
"subnode",
"in",
"node",
":",
"crds"... | Parses a complex fault geometry node returning both the attributes and
parameters in a dictionary | [
"Parses",
"a",
"complex",
"fault",
"geometry",
"node",
"returning",
"both",
"the",
"attributes",
"and",
"parameters",
"in",
"a",
"dictionary"
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/commonlib/shapefileparser.py#L201-L231 |
gem/oq-engine | openquake/commonlib/shapefileparser.py | parse_planar_fault_geometry | def parse_planar_fault_geometry(node):
"""
Parses a planar fault geometry node returning both the attributes and
parameters in a dictionary
"""
assert "planarSurface" in node.tag
geometry = {"strike": node.attrib["strike"],
"dip": node.attrib["dip"]}
upper_depth = numpy.inf
... | python | def parse_planar_fault_geometry(node):
assert "planarSurface" in node.tag
geometry = {"strike": node.attrib["strike"],
"dip": node.attrib["dip"]}
upper_depth = numpy.inf
lower_depth = 0.0
tags = get_taglist(node)
corner_points = []
for locn in ["topLeft", "topRight", "bo... | [
"def",
"parse_planar_fault_geometry",
"(",
"node",
")",
":",
"assert",
"\"planarSurface\"",
"in",
"node",
".",
"tag",
"geometry",
"=",
"{",
"\"strike\"",
":",
"node",
".",
"attrib",
"[",
"\"strike\"",
"]",
",",
"\"dip\"",
":",
"node",
".",
"attrib",
"[",
"... | Parses a planar fault geometry node returning both the attributes and
parameters in a dictionary | [
"Parses",
"a",
"planar",
"fault",
"geometry",
"node",
"returning",
"both",
"the",
"attributes",
"and",
"parameters",
"in",
"a",
"dictionary"
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/commonlib/shapefileparser.py#L234-L256 |
gem/oq-engine | openquake/commonlib/shapefileparser.py | extract_mfd_params | def extract_mfd_params(src):
"""
Extracts the MFD parameters from an object
"""
tags = get_taglist(src)
if "incrementalMFD" in tags:
mfd_node = src.nodes[tags.index("incrementalMFD")]
elif "truncGutenbergRichterMFD" in tags:
mfd_node = src.nodes[tags.index("truncGutenbergRichterM... | python | def extract_mfd_params(src):
tags = get_taglist(src)
if "incrementalMFD" in tags:
mfd_node = src.nodes[tags.index("incrementalMFD")]
elif "truncGutenbergRichterMFD" in tags:
mfd_node = src.nodes[tags.index("truncGutenbergRichterMFD")]
elif "arbitraryMFD" in tags:
mfd_node = ... | [
"def",
"extract_mfd_params",
"(",
"src",
")",
":",
"tags",
"=",
"get_taglist",
"(",
"src",
")",
"if",
"\"incrementalMFD\"",
"in",
"tags",
":",
"mfd_node",
"=",
"src",
".",
"nodes",
"[",
"tags",
".",
"index",
"(",
"\"incrementalMFD\"",
")",
"]",
"elif",
"... | Extracts the MFD parameters from an object | [
"Extracts",
"the",
"MFD",
"parameters",
"from",
"an",
"object"
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/commonlib/shapefileparser.py#L322-L359 |
gem/oq-engine | openquake/commonlib/shapefileparser.py | extract_source_hypocentral_depths | def extract_source_hypocentral_depths(src):
"""
Extract source hypocentral depths.
"""
if "pointSource" not in src.tag and "areaSource" not in src.tag:
hds = dict([(key, None) for key, _ in HDEPTH_PARAMS])
hdsw = dict([(key, None) for key, _ in HDW_PARAMS])
return hds, hdsw
... | python | def extract_source_hypocentral_depths(src):
if "pointSource" not in src.tag and "areaSource" not in src.tag:
hds = dict([(key, None) for key, _ in HDEPTH_PARAMS])
hdsw = dict([(key, None) for key, _ in HDW_PARAMS])
return hds, hdsw
tags = get_taglist(src)
hdd_nodeset = src.node... | [
"def",
"extract_source_hypocentral_depths",
"(",
"src",
")",
":",
"if",
"\"pointSource\"",
"not",
"in",
"src",
".",
"tag",
"and",
"\"areaSource\"",
"not",
"in",
"src",
".",
"tag",
":",
"hds",
"=",
"dict",
"(",
"[",
"(",
"key",
",",
"None",
")",
"for",
... | Extract source hypocentral depths. | [
"Extract",
"source",
"hypocentral",
"depths",
"."
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/commonlib/shapefileparser.py#L397-L425 |
gem/oq-engine | openquake/commonlib/shapefileparser.py | extract_source_planes_strikes_dips | def extract_source_planes_strikes_dips(src):
"""
Extract strike and dip angles for source defined by multiple planes.
"""
if "characteristicFaultSource" not in src.tag:
strikes = dict([(key, None) for key, _ in PLANES_STRIKES_PARAM])
dips = dict([(key, None) for key, _ in PLANES_DIPS_PAR... | python | def extract_source_planes_strikes_dips(src):
if "characteristicFaultSource" not in src.tag:
strikes = dict([(key, None) for key, _ in PLANES_STRIKES_PARAM])
dips = dict([(key, None) for key, _ in PLANES_DIPS_PARAM])
return strikes, dips
tags = get_taglist(src)
surface_set = src.... | [
"def",
"extract_source_planes_strikes_dips",
"(",
"src",
")",
":",
"if",
"\"characteristicFaultSource\"",
"not",
"in",
"src",
".",
"tag",
":",
"strikes",
"=",
"dict",
"(",
"[",
"(",
"key",
",",
"None",
")",
"for",
"key",
",",
"_",
"in",
"PLANES_STRIKES_PARAM... | Extract strike and dip angles for source defined by multiple planes. | [
"Extract",
"strike",
"and",
"dip",
"angles",
"for",
"source",
"defined",
"by",
"multiple",
"planes",
"."
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/commonlib/shapefileparser.py#L428-L456 |
gem/oq-engine | openquake/commonlib/shapefileparser.py | set_params | def set_params(w, src):
"""
Set source parameters.
"""
params = extract_source_params(src)
# this is done because for characteristic sources geometry is in
# 'surface' attribute
params.update(extract_geometry_params(src))
mfd_pars, rate_pars = extract_mfd_params(src)
params.update(m... | python | def set_params(w, src):
params = extract_source_params(src)
params.update(extract_geometry_params(src))
mfd_pars, rate_pars = extract_mfd_params(src)
params.update(mfd_pars)
params.update(rate_pars)
strikes, dips, rakes, np_weights = extract_source_nodal_planes(src)
params.u... | [
"def",
"set_params",
"(",
"w",
",",
"src",
")",
":",
"params",
"=",
"extract_source_params",
"(",
"src",
")",
"# this is done because for characteristic sources geometry is in",
"# 'surface' attribute",
"params",
".",
"update",
"(",
"extract_geometry_params",
"(",
"src",
... | Set source parameters. | [
"Set",
"source",
"parameters",
"."
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/commonlib/shapefileparser.py#L459-L486 |
gem/oq-engine | openquake/commonlib/shapefileparser.py | set_area_geometry | def set_area_geometry(w, src):
"""
Set area polygon as shapefile geometry
"""
assert "areaSource" in src.tag
geometry_node = src.nodes[get_taglist(src).index("areaGeometry")]
area_attrs = parse_area_geometry(geometry_node)
w.poly(parts=[area_attrs["polygon"].tolist()]) | python | def set_area_geometry(w, src):
assert "areaSource" in src.tag
geometry_node = src.nodes[get_taglist(src).index("areaGeometry")]
area_attrs = parse_area_geometry(geometry_node)
w.poly(parts=[area_attrs["polygon"].tolist()]) | [
"def",
"set_area_geometry",
"(",
"w",
",",
"src",
")",
":",
"assert",
"\"areaSource\"",
"in",
"src",
".",
"tag",
"geometry_node",
"=",
"src",
".",
"nodes",
"[",
"get_taglist",
"(",
"src",
")",
".",
"index",
"(",
"\"areaGeometry\"",
")",
"]",
"area_attrs",
... | Set area polygon as shapefile geometry | [
"Set",
"area",
"polygon",
"as",
"shapefile",
"geometry"
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/commonlib/shapefileparser.py#L489-L496 |
gem/oq-engine | openquake/commonlib/shapefileparser.py | set_point_geometry | def set_point_geometry(w, src):
"""
Set point location as shapefile geometry.
"""
assert "pointSource" in src.tag
geometry_node = src.nodes[get_taglist(src).index("pointGeometry")]
point_attrs = parse_point_geometry(geometry_node)
w.point(point_attrs["point"][0], point_attrs["point"][1]) | python | def set_point_geometry(w, src):
assert "pointSource" in src.tag
geometry_node = src.nodes[get_taglist(src).index("pointGeometry")]
point_attrs = parse_point_geometry(geometry_node)
w.point(point_attrs["point"][0], point_attrs["point"][1]) | [
"def",
"set_point_geometry",
"(",
"w",
",",
"src",
")",
":",
"assert",
"\"pointSource\"",
"in",
"src",
".",
"tag",
"geometry_node",
"=",
"src",
".",
"nodes",
"[",
"get_taglist",
"(",
"src",
")",
".",
"index",
"(",
"\"pointGeometry\"",
")",
"]",
"point_attr... | Set point location as shapefile geometry. | [
"Set",
"point",
"location",
"as",
"shapefile",
"geometry",
"."
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/commonlib/shapefileparser.py#L499-L506 |
gem/oq-engine | openquake/commonlib/shapefileparser.py | set_simple_fault_geometry | def set_simple_fault_geometry(w, src):
"""
Set simple fault trace coordinates as shapefile geometry.
:parameter w:
Writer
:parameter src:
source
"""
assert "simpleFaultSource" in src.tag
geometry_node = src.nodes[get_taglist(src).index("simpleFaultGeometry")]
fault_attrs... | python | def set_simple_fault_geometry(w, src):
assert "simpleFaultSource" in src.tag
geometry_node = src.nodes[get_taglist(src).index("simpleFaultGeometry")]
fault_attrs = parse_simple_fault_geometry(geometry_node)
w.line(parts=[fault_attrs["trace"].tolist()]) | [
"def",
"set_simple_fault_geometry",
"(",
"w",
",",
"src",
")",
":",
"assert",
"\"simpleFaultSource\"",
"in",
"src",
".",
"tag",
"geometry_node",
"=",
"src",
".",
"nodes",
"[",
"get_taglist",
"(",
"src",
")",
".",
"index",
"(",
"\"simpleFaultGeometry\"",
")",
... | Set simple fault trace coordinates as shapefile geometry.
:parameter w:
Writer
:parameter src:
source | [
"Set",
"simple",
"fault",
"trace",
"coordinates",
"as",
"shapefile",
"geometry",
"."
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/commonlib/shapefileparser.py#L509-L521 |
gem/oq-engine | openquake/commonlib/shapefileparser.py | set_simple_fault_geometry_3D | def set_simple_fault_geometry_3D(w, src):
"""
Builds a 3D polygon from a node instance
"""
assert "simpleFaultSource" in src.tag
geometry_node = src.nodes[get_taglist(src).index("simpleFaultGeometry")]
fault_attrs = parse_simple_fault_geometry(geometry_node)
build_polygon_from_fault_attrs(w,... | python | def set_simple_fault_geometry_3D(w, src):
assert "simpleFaultSource" in src.tag
geometry_node = src.nodes[get_taglist(src).index("simpleFaultGeometry")]
fault_attrs = parse_simple_fault_geometry(geometry_node)
build_polygon_from_fault_attrs(w, fault_attrs) | [
"def",
"set_simple_fault_geometry_3D",
"(",
"w",
",",
"src",
")",
":",
"assert",
"\"simpleFaultSource\"",
"in",
"src",
".",
"tag",
"geometry_node",
"=",
"src",
".",
"nodes",
"[",
"get_taglist",
"(",
"src",
")",
".",
"index",
"(",
"\"simpleFaultGeometry\"",
")"... | Builds a 3D polygon from a node instance | [
"Builds",
"a",
"3D",
"polygon",
"from",
"a",
"node",
"instance"
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/commonlib/shapefileparser.py#L543-L550 |
gem/oq-engine | openquake/commonlib/shapefileparser.py | SourceModel.appraise_source_model | def appraise_source_model(self):
"""
Identify parameters defined in NRML source model file, so that
shapefile contains only source model specific fields.
"""
for src in self.sources:
# source params
src_taglist = get_taglist(src)
if "areaSource... | python | def appraise_source_model(self):
for src in self.sources:
src_taglist = get_taglist(src)
if "areaSource" in src.tag:
self.has_area_source = True
npd_node = src.nodes[src_taglist.index("nodalPlaneDist")]
npd_size = len(... | [
"def",
"appraise_source_model",
"(",
"self",
")",
":",
"for",
"src",
"in",
"self",
".",
"sources",
":",
"# source params",
"src_taglist",
"=",
"get_taglist",
"(",
"src",
")",
"if",
"\"areaSource\"",
"in",
"src",
".",
"tag",
":",
"self",
".",
"has_area_source... | Identify parameters defined in NRML source model file, so that
shapefile contains only source model specific fields. | [
"Identify",
"parameters",
"defined",
"in",
"NRML",
"source",
"model",
"file",
"so",
"that",
"shapefile",
"contains",
"only",
"source",
"model",
"specific",
"fields",
"."
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/commonlib/shapefileparser.py#L826-L884 |
gem/oq-engine | openquake/commonlib/shapefileparser.py | SourceModelParser.read | def read(self, nrml_file, validate=False,
simple_fault_spacing=1.0, complex_mesh_spacing=5.0,
mfd_spacing=0.1):
"""
Build the source model from nrml format
"""
self.source_file = nrml_file
if validate:
converter = SourceConverter(1.0, simple_... | python | def read(self, nrml_file, validate=False,
simple_fault_spacing=1.0, complex_mesh_spacing=5.0,
mfd_spacing=0.1):
self.source_file = nrml_file
if validate:
converter = SourceConverter(1.0, simple_fault_spacing,
complex_... | [
"def",
"read",
"(",
"self",
",",
"nrml_file",
",",
"validate",
"=",
"False",
",",
"simple_fault_spacing",
"=",
"1.0",
",",
"complex_mesh_spacing",
"=",
"5.0",
",",
"mfd_spacing",
"=",
"0.1",
")",
":",
"self",
".",
"source_file",
"=",
"nrml_file",
"if",
"va... | Build the source model from nrml format | [
"Build",
"the",
"source",
"model",
"from",
"nrml",
"format"
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/commonlib/shapefileparser.py#L910-L935 |
gem/oq-engine | openquake/commonlib/shapefileparser.py | SourceModelParser.write | def write(self, destination, source_model, name=None):
"""
Exports to NRML
"""
if os.path.exists(destination):
os.remove(destination)
self.destination = destination
if name:
source_model.name = name
output_source_model = Node("sourceModel",... | python | def write(self, destination, source_model, name=None):
if os.path.exists(destination):
os.remove(destination)
self.destination = destination
if name:
source_model.name = name
output_source_model = Node("sourceModel", {"name": name})
dic = groupby(... | [
"def",
"write",
"(",
"self",
",",
"destination",
",",
"source_model",
",",
"name",
"=",
"None",
")",
":",
"if",
"os",
".",
"path",
".",
"exists",
"(",
"destination",
")",
":",
"os",
".",
"remove",
"(",
"destination",
")",
"self",
".",
"destination",
... | Exports to NRML | [
"Exports",
"to",
"NRML"
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/commonlib/shapefileparser.py#L937-L956 |
gem/oq-engine | openquake/commonlib/shapefileparser.py | ShapefileParser.filter_params | def filter_params(self, src_mod):
"""
Remove params uneeded by source_model
"""
# point and area related params
STRIKE_PARAMS[src_mod.num_np:] = []
DIP_PARAMS[src_mod.num_np:] = []
RAKE_PARAMS[src_mod.num_np:] = []
NPW_PARAMS[src_mod.num_np:] = []
... | python | def filter_params(self, src_mod):
STRIKE_PARAMS[src_mod.num_np:] = []
DIP_PARAMS[src_mod.num_np:] = []
RAKE_PARAMS[src_mod.num_np:] = []
NPW_PARAMS[src_mod.num_np:] = []
HDEPTH_PARAMS[src_mod.num_hd:] = []
HDW_PARAMS[src_mod.num_hd:] = []
... | [
"def",
"filter_params",
"(",
"self",
",",
"src_mod",
")",
":",
"# point and area related params",
"STRIKE_PARAMS",
"[",
"src_mod",
".",
"num_np",
":",
"]",
"=",
"[",
"]",
"DIP_PARAMS",
"[",
"src_mod",
".",
"num_np",
":",
"]",
"=",
"[",
"]",
"RAKE_PARAMS",
... | Remove params uneeded by source_model | [
"Remove",
"params",
"uneeded",
"by",
"source_model"
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/commonlib/shapefileparser.py#L960-L992 |
gem/oq-engine | openquake/commonlib/shapefileparser.py | ShapefileParser.read | def read(self, input_shapefile, validate=False,
simple_fault_spacing=1.0, complex_mesh_spacing=5.0,
mfd_spacing=0.1):
"""
Build the source model from nrml format
"""
reader = shapefile.Reader(input_shapefile)
fields = [field[0] for field in reader.fields... | python | def read(self, input_shapefile, validate=False,
simple_fault_spacing=1.0, complex_mesh_spacing=5.0,
mfd_spacing=0.1):
reader = shapefile.Reader(input_shapefile)
fields = [field[0] for field in reader.fields[1:]]
shapes = reader.shapes()
records = reader... | [
"def",
"read",
"(",
"self",
",",
"input_shapefile",
",",
"validate",
"=",
"False",
",",
"simple_fault_spacing",
"=",
"1.0",
",",
"complex_mesh_spacing",
"=",
"5.0",
",",
"mfd_spacing",
"=",
"0.1",
")",
":",
"reader",
"=",
"shapefile",
".",
"Reader",
"(",
"... | Build the source model from nrml format | [
"Build",
"the",
"source",
"model",
"from",
"nrml",
"format"
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/commonlib/shapefileparser.py#L994-L1030 |
gem/oq-engine | openquake/commonlib/shapefileparser.py | ShapefileParser.write | def write(self, destination, source_model, name=None):
"""
Save sources - to multiple
shapefiles corresponding to different source typolgies/geometries
('_point', '_area', '_simple', '_complex', '_planar')
"""
if os.path.exists(destination + ".shp"):
os.system... | python | def write(self, destination, source_model, name=None):
if os.path.exists(destination + ".shp"):
os.system("rm %s.*" % destination)
self.destination = destination
self.filter_params(source_model)
w_area = shapefile.Writer(shapefile.POLYGON)
w_point = shapefil... | [
"def",
"write",
"(",
"self",
",",
"destination",
",",
"source_model",
",",
"name",
"=",
"None",
")",
":",
"if",
"os",
".",
"path",
".",
"exists",
"(",
"destination",
"+",
"\".shp\"",
")",
":",
"os",
".",
"system",
"(",
"\"rm %s.*\"",
"%",
"destination"... | Save sources - to multiple
shapefiles corresponding to different source typolgies/geometries
('_point', '_area', '_simple', '_complex', '_planar') | [
"Save",
"sources",
"-",
"to",
"multiple",
"shapefiles",
"corresponding",
"to",
"different",
"source",
"typolgies",
"/",
"geometries",
"(",
"_point",
"_area",
"_simple",
"_complex",
"_planar",
")"
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/commonlib/shapefileparser.py#L1032-L1107 |
gem/oq-engine | openquake/commands/shell.py | shell | def shell(script=None, args=()):
"""
Start an embedded (i)python instance with a global object "o" or
run a Python script in the engine environment.
"""
if script:
sys.argv = sys.argv[2:] # strip ['oq', 'shell']
runpy.run_path(script, run_name='__main__')
return
o = Open... | python | def shell(script=None, args=()):
if script:
sys.argv = sys.argv[2:]
runpy.run_path(script, run_name='__main__')
return
o = OpenQuake()
try:
import IPython
IPython.embed(banner1='IPython shell with a global object "o"')
except ImportError:
import c... | [
"def",
"shell",
"(",
"script",
"=",
"None",
",",
"args",
"=",
"(",
")",
")",
":",
"if",
"script",
":",
"sys",
".",
"argv",
"=",
"sys",
".",
"argv",
"[",
"2",
":",
"]",
"# strip ['oq', 'shell']",
"runpy",
".",
"run_path",
"(",
"script",
",",
"run_na... | Start an embedded (i)python instance with a global object "o" or
run a Python script in the engine environment. | [
"Start",
"an",
"embedded",
"(",
"i",
")",
"python",
"instance",
"with",
"a",
"global",
"object",
"o",
"or",
"run",
"a",
"Python",
"script",
"in",
"the",
"engine",
"environment",
"."
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/commands/shell.py#L57-L73 |
gem/oq-engine | openquake/hmtk/seismicity/completeness/comp_stepp_1971.py | get_bilinear_residuals_stepp | def get_bilinear_residuals_stepp(input_params, xvals, yvals, slope1_fit):
'''
Returns the residual sum-of-squares value of a bilinear fit to a data
set - with a segment - 1 gradient fixed by an input value (slope_1_fit)
:param list input_params:
Input parameters for the bilinear model [slope2, ... | python | def get_bilinear_residuals_stepp(input_params, xvals, yvals, slope1_fit):
params = np.hstack([slope1_fit, input_params])
num_x = len(xvals)
y_model = np.zeros(num_x, dtype=float)
residuals = np.zeros(num_x, dtype=float)
for iloc in range(0, num_x):
y_model[iloc] = piecewise_linear_scala... | [
"def",
"get_bilinear_residuals_stepp",
"(",
"input_params",
",",
"xvals",
",",
"yvals",
",",
"slope1_fit",
")",
":",
"params",
"=",
"np",
".",
"hstack",
"(",
"[",
"slope1_fit",
",",
"input_params",
"]",
")",
"num_x",
"=",
"len",
"(",
"xvals",
")",
"y_model... | Returns the residual sum-of-squares value of a bilinear fit to a data
set - with a segment - 1 gradient fixed by an input value (slope_1_fit)
:param list input_params:
Input parameters for the bilinear model [slope2, crossover_point,
intercept]
:para... | [
"Returns",
"the",
"residual",
"sum",
"-",
"of",
"-",
"squares",
"value",
"of",
"a",
"bilinear",
"fit",
"to",
"a",
"data",
"set",
"-",
"with",
"a",
"segment",
"-",
"1",
"gradient",
"fixed",
"by",
"an",
"input",
"value",
"(",
"slope_1_fit",
")"
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/hmtk/seismicity/completeness/comp_stepp_1971.py#L62-L89 |
gem/oq-engine | openquake/baselib/node.py | floatformat | def floatformat(fmt_string):
"""
Context manager to change the default format string for the
function :func:`openquake.commonlib.writers.scientificformat`.
:param fmt_string: the format to use; for instance '%13.9E'
"""
fmt_defaults = scientificformat.__defaults__
scientificformat.__default... | python | def floatformat(fmt_string):
fmt_defaults = scientificformat.__defaults__
scientificformat.__defaults__ = (fmt_string,) + fmt_defaults[1:]
try:
yield
finally:
scientificformat.__defaults__ = fmt_defaults | [
"def",
"floatformat",
"(",
"fmt_string",
")",
":",
"fmt_defaults",
"=",
"scientificformat",
".",
"__defaults__",
"scientificformat",
".",
"__defaults__",
"=",
"(",
"fmt_string",
",",
")",
"+",
"fmt_defaults",
"[",
"1",
":",
"]",
"try",
":",
"yield",
"finally",... | Context manager to change the default format string for the
function :func:`openquake.commonlib.writers.scientificformat`.
:param fmt_string: the format to use; for instance '%13.9E' | [
"Context",
"manager",
"to",
"change",
"the",
"default",
"format",
"string",
"for",
"the",
"function",
":",
"func",
":",
"openquake",
".",
"commonlib",
".",
"writers",
".",
"scientificformat",
"."
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/baselib/node.py#L160-L172 |
gem/oq-engine | openquake/baselib/node.py | scientificformat | def scientificformat(value, fmt='%13.9E', sep=' ', sep2=':'):
"""
:param value: the value to convert into a string
:param fmt: the formatting string to use for float values
:param sep: separator to use for vector-like values
:param sep2: second separator to use for matrix-like values
Convert a ... | python | def scientificformat(value, fmt='%13.9E', sep=' ', sep2=':'):
if isinstance(value, numpy.bool_):
return '1' if value else '0'
elif isinstance(value, bytes):
return value.decode('utf8')
elif isinstance(value, str):
return value
elif hasattr(value, '__len__'):
return s... | [
"def",
"scientificformat",
"(",
"value",
",",
"fmt",
"=",
"'%13.9E'",
",",
"sep",
"=",
"' '",
",",
"sep2",
"=",
"':'",
")",
":",
"if",
"isinstance",
"(",
"value",
",",
"numpy",
".",
"bool_",
")",
":",
"return",
"'1'",
"if",
"value",
"else",
"'0'",
... | :param value: the value to convert into a string
:param fmt: the formatting string to use for float values
:param sep: separator to use for vector-like values
:param sep2: second separator to use for matrix-like values
Convert a float or an array into a string by using the scientific notation
and a... | [
":",
"param",
"value",
":",
"the",
"value",
"to",
"convert",
"into",
"a",
"string",
":",
"param",
"fmt",
":",
"the",
"formatting",
"string",
"to",
"use",
"for",
"float",
"values",
":",
"param",
"sep",
":",
"separator",
"to",
"use",
"for",
"vector",
"-"... | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/baselib/node.py#L178-L213 |
gem/oq-engine | openquake/baselib/node.py | tostring | def tostring(node, indent=4, nsmap=None):
"""
Convert a node into an XML string by using the StreamingXMLWriter.
This is useful for testing purposes.
:param node: a node object (typically an ElementTree object)
:param indent: the indentation to use in the XML (default 4 spaces)
"""
out = io... | python | def tostring(node, indent=4, nsmap=None):
out = io.BytesIO()
writer = StreamingXMLWriter(out, indent, nsmap=nsmap)
writer.serialize(node)
return out.getvalue() | [
"def",
"tostring",
"(",
"node",
",",
"indent",
"=",
"4",
",",
"nsmap",
"=",
"None",
")",
":",
"out",
"=",
"io",
".",
"BytesIO",
"(",
")",
"writer",
"=",
"StreamingXMLWriter",
"(",
"out",
",",
"indent",
",",
"nsmap",
"=",
"nsmap",
")",
"writer",
"."... | Convert a node into an XML string by using the StreamingXMLWriter.
This is useful for testing purposes.
:param node: a node object (typically an ElementTree object)
:param indent: the indentation to use in the XML (default 4 spaces) | [
"Convert",
"a",
"node",
"into",
"an",
"XML",
"string",
"by",
"using",
"the",
"StreamingXMLWriter",
".",
"This",
"is",
"useful",
"for",
"testing",
"purposes",
"."
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/baselib/node.py#L216-L227 |
gem/oq-engine | openquake/baselib/node.py | parse | def parse(source, remove_comments=True, **kw):
"""Thin wrapper around ElementTree.parse"""
return ElementTree.parse(source, SourceLineParser(), **kw) | python | def parse(source, remove_comments=True, **kw):
return ElementTree.parse(source, SourceLineParser(), **kw) | [
"def",
"parse",
"(",
"source",
",",
"remove_comments",
"=",
"True",
",",
"*",
"*",
"kw",
")",
":",
"return",
"ElementTree",
".",
"parse",
"(",
"source",
",",
"SourceLineParser",
"(",
")",
",",
"*",
"*",
"kw",
")"
] | Thin wrapper around ElementTree.parse | [
"Thin",
"wrapper",
"around",
"ElementTree",
".",
"parse"
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/baselib/node.py#L350-L352 |
gem/oq-engine | openquake/baselib/node.py | iterparse | def iterparse(source, events=('end',), remove_comments=True, **kw):
"""Thin wrapper around ElementTree.iterparse"""
return ElementTree.iterparse(source, events, SourceLineParser(), **kw) | python | def iterparse(source, events=('end',), remove_comments=True, **kw):
return ElementTree.iterparse(source, events, SourceLineParser(), **kw) | [
"def",
"iterparse",
"(",
"source",
",",
"events",
"=",
"(",
"'end'",
",",
")",
",",
"remove_comments",
"=",
"True",
",",
"*",
"*",
"kw",
")",
":",
"return",
"ElementTree",
".",
"iterparse",
"(",
"source",
",",
"events",
",",
"SourceLineParser",
"(",
")... | Thin wrapper around ElementTree.iterparse | [
"Thin",
"wrapper",
"around",
"ElementTree",
".",
"iterparse"
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/baselib/node.py#L355-L357 |
gem/oq-engine | openquake/baselib/node.py | _displayattrs | def _displayattrs(attrib, expandattrs):
"""
Helper function to display the attributes of a Node object in lexicographic
order.
:param attrib: dictionary with the attributes
:param expandattrs: if True also displays the value of the attributes
"""
if not attrib:
return ''
if expa... | python | def _displayattrs(attrib, expandattrs):
if not attrib:
return ''
if expandattrs:
alist = ['%s=%r' % item for item in sorted(attrib.items())]
else:
alist = list(attrib)
return '{%s}' % ', '.join(alist) | [
"def",
"_displayattrs",
"(",
"attrib",
",",
"expandattrs",
")",
":",
"if",
"not",
"attrib",
":",
"return",
"''",
"if",
"expandattrs",
":",
"alist",
"=",
"[",
"'%s=%r'",
"%",
"item",
"for",
"item",
"in",
"sorted",
"(",
"attrib",
".",
"items",
"(",
")",
... | Helper function to display the attributes of a Node object in lexicographic
order.
:param attrib: dictionary with the attributes
:param expandattrs: if True also displays the value of the attributes | [
"Helper",
"function",
"to",
"display",
"the",
"attributes",
"of",
"a",
"Node",
"object",
"in",
"lexicographic",
"order",
"."
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/baselib/node.py#L363-L377 |
gem/oq-engine | openquake/baselib/node.py | _display | def _display(node, indent, expandattrs, expandvals, output):
"""Core function to display a Node object"""
attrs = _displayattrs(node.attrib, expandattrs)
if node.text is None or not expandvals:
val = ''
elif isinstance(node.text, str):
val = ' %s' % repr(node.text.strip())
else:
... | python | def _display(node, indent, expandattrs, expandvals, output):
attrs = _displayattrs(node.attrib, expandattrs)
if node.text is None or not expandvals:
val = ''
elif isinstance(node.text, str):
val = ' %s' % repr(node.text.strip())
else:
val = ' %s' % repr(node.text)
outp... | [
"def",
"_display",
"(",
"node",
",",
"indent",
",",
"expandattrs",
",",
"expandvals",
",",
"output",
")",
":",
"attrs",
"=",
"_displayattrs",
"(",
"node",
".",
"attrib",
",",
"expandattrs",
")",
"if",
"node",
".",
"text",
"is",
"None",
"or",
"not",
"ex... | Core function to display a Node object | [
"Core",
"function",
"to",
"display",
"a",
"Node",
"object"
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/baselib/node.py#L380-L391 |
gem/oq-engine | openquake/baselib/node.py | node_display | def node_display(root, expandattrs=False, expandvals=False, output=sys.stdout):
"""
Write an indented representation of the Node object on the output;
this is intended for testing/debugging purposes.
:param root: a Node object
:param bool expandattrs: if True, the values of the attributes are
... | python | def node_display(root, expandattrs=False, expandvals=False, output=sys.stdout):
_display(root, '', expandattrs, expandvals, output) | [
"def",
"node_display",
"(",
"root",
",",
"expandattrs",
"=",
"False",
",",
"expandvals",
"=",
"False",
",",
"output",
"=",
"sys",
".",
"stdout",
")",
":",
"_display",
"(",
"root",
",",
"''",
",",
"expandattrs",
",",
"expandvals",
",",
"output",
")"
] | Write an indented representation of the Node object on the output;
this is intended for testing/debugging purposes.
:param root: a Node object
:param bool expandattrs: if True, the values of the attributes are
also printed, not only the names
:param bool expandvals: if True... | [
"Write",
"an",
"indented",
"representation",
"of",
"the",
"Node",
"object",
"on",
"the",
"output",
";",
"this",
"is",
"intended",
"for",
"testing",
"/",
"debugging",
"purposes",
"."
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/baselib/node.py#L394-L406 |
gem/oq-engine | openquake/baselib/node.py | to_literal | def to_literal(self):
"""
Convert the node into a literal Python object
"""
if not self.nodes:
return (self.tag, self.attrib, self.text, [])
else:
return (self.tag, self.attrib, self.text,
list(map(to_literal, self.nodes))) | python | def to_literal(self):
if not self.nodes:
return (self.tag, self.attrib, self.text, [])
else:
return (self.tag, self.attrib, self.text,
list(map(to_literal, self.nodes))) | [
"def",
"to_literal",
"(",
"self",
")",
":",
"if",
"not",
"self",
".",
"nodes",
":",
"return",
"(",
"self",
".",
"tag",
",",
"self",
".",
"attrib",
",",
"self",
".",
"text",
",",
"[",
"]",
")",
"else",
":",
"return",
"(",
"self",
".",
"tag",
","... | Convert the node into a literal Python object | [
"Convert",
"the",
"node",
"into",
"a",
"literal",
"Python",
"object"
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/baselib/node.py#L574-L582 |
gem/oq-engine | openquake/baselib/node.py | pprint | def pprint(self, stream=None, indent=1, width=80, depth=None):
"""
Pretty print the underlying literal Python object
"""
pp.pprint(to_literal(self), stream, indent, width, depth) | python | def pprint(self, stream=None, indent=1, width=80, depth=None):
pp.pprint(to_literal(self), stream, indent, width, depth) | [
"def",
"pprint",
"(",
"self",
",",
"stream",
"=",
"None",
",",
"indent",
"=",
"1",
",",
"width",
"=",
"80",
",",
"depth",
"=",
"None",
")",
":",
"pp",
".",
"pprint",
"(",
"to_literal",
"(",
"self",
")",
",",
"stream",
",",
"indent",
",",
"width",... | Pretty print the underlying literal Python object | [
"Pretty",
"print",
"the",
"underlying",
"literal",
"Python",
"object"
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/baselib/node.py#L585-L589 |
gem/oq-engine | openquake/baselib/node.py | node_from_dict | def node_from_dict(dic, nodefactory=Node):
"""
Convert a (nested) dictionary with attributes tag, attrib, text, nodes
into a Node object.
"""
tag = dic['tag']
text = dic.get('text')
attrib = dic.get('attrib', {})
nodes = dic.get('nodes', [])
if not nodes:
return nodefactory(t... | python | def node_from_dict(dic, nodefactory=Node):
tag = dic['tag']
text = dic.get('text')
attrib = dic.get('attrib', {})
nodes = dic.get('nodes', [])
if not nodes:
return nodefactory(tag, attrib, text)
return nodefactory(tag, attrib, nodes=list(map(node_from_dict, nodes))) | [
"def",
"node_from_dict",
"(",
"dic",
",",
"nodefactory",
"=",
"Node",
")",
":",
"tag",
"=",
"dic",
"[",
"'tag'",
"]",
"text",
"=",
"dic",
".",
"get",
"(",
"'text'",
")",
"attrib",
"=",
"dic",
".",
"get",
"(",
"'attrib'",
",",
"{",
"}",
")",
"node... | Convert a (nested) dictionary with attributes tag, attrib, text, nodes
into a Node object. | [
"Convert",
"a",
"(",
"nested",
")",
"dictionary",
"with",
"attributes",
"tag",
"attrib",
"text",
"nodes",
"into",
"a",
"Node",
"object",
"."
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/baselib/node.py#L592-L603 |
gem/oq-engine | openquake/baselib/node.py | node_to_dict | def node_to_dict(node):
"""
Convert a Node object into a (nested) dictionary
with attributes tag, attrib, text, nodes.
:param node: a Node-compatible object
"""
dic = dict(tag=striptag(node.tag))
if node.attrib:
dic['attrib'] = node.attrib
if node.text is not None:
dic['... | python | def node_to_dict(node):
dic = dict(tag=striptag(node.tag))
if node.attrib:
dic['attrib'] = node.attrib
if node.text is not None:
dic['text'] = node.text
if node.nodes:
dic['nodes'] = [node_to_dict(n) for n in node]
return dic | [
"def",
"node_to_dict",
"(",
"node",
")",
":",
"dic",
"=",
"dict",
"(",
"tag",
"=",
"striptag",
"(",
"node",
".",
"tag",
")",
")",
"if",
"node",
".",
"attrib",
":",
"dic",
"[",
"'attrib'",
"]",
"=",
"node",
".",
"attrib",
"if",
"node",
".",
"text"... | Convert a Node object into a (nested) dictionary
with attributes tag, attrib, text, nodes.
:param node: a Node-compatible object | [
"Convert",
"a",
"Node",
"object",
"into",
"a",
"(",
"nested",
")",
"dictionary",
"with",
"attributes",
"tag",
"attrib",
"text",
"nodes",
"."
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/baselib/node.py#L606-L620 |
gem/oq-engine | openquake/baselib/node.py | node_from_elem | def node_from_elem(elem, nodefactory=Node, lazy=()):
"""
Convert (recursively) an ElementTree object into a Node object.
"""
children = list(elem)
lineno = getattr(elem, 'lineno', None)
if not children:
return nodefactory(elem.tag, dict(elem.attrib), elem.text,
... | python | def node_from_elem(elem, nodefactory=Node, lazy=()):
children = list(elem)
lineno = getattr(elem, 'lineno', None)
if not children:
return nodefactory(elem.tag, dict(elem.attrib), elem.text,
lineno=lineno)
if striptag(elem.tag) in lazy:
nodes = (node_from_e... | [
"def",
"node_from_elem",
"(",
"elem",
",",
"nodefactory",
"=",
"Node",
",",
"lazy",
"=",
"(",
")",
")",
":",
"children",
"=",
"list",
"(",
"elem",
")",
"lineno",
"=",
"getattr",
"(",
"elem",
",",
"'lineno'",
",",
"None",
")",
"if",
"not",
"children",... | Convert (recursively) an ElementTree object into a Node object. | [
"Convert",
"(",
"recursively",
")",
"an",
"ElementTree",
"object",
"into",
"a",
"Node",
"object",
"."
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/baselib/node.py#L623-L636 |
gem/oq-engine | openquake/baselib/node.py | node_to_elem | def node_to_elem(root):
"""
Convert (recursively) a Node object into an ElementTree object.
"""
def generate_elem(append, node, level):
var = "e" + str(level)
arg = repr(node.tag)
if node.attrib:
arg += ", **%r" % node.attrib
if level == 1:
append(... | python | def node_to_elem(root):
def generate_elem(append, node, level):
var = "e" + str(level)
arg = repr(node.tag)
if node.attrib:
arg += ", **%r" % node.attrib
if level == 1:
append("e1 = Element(%s)" % arg)
else:
append("%s = SubElement(e%d... | [
"def",
"node_to_elem",
"(",
"root",
")",
":",
"def",
"generate_elem",
"(",
"append",
",",
"node",
",",
"level",
")",
":",
"var",
"=",
"\"e\"",
"+",
"str",
"(",
"level",
")",
"arg",
"=",
"repr",
"(",
"node",
".",
"tag",
")",
"if",
"node",
".",
"at... | Convert (recursively) a Node object into an ElementTree object. | [
"Convert",
"(",
"recursively",
")",
"a",
"Node",
"object",
"into",
"an",
"ElementTree",
"object",
"."
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/baselib/node.py#L640-L663 |
gem/oq-engine | openquake/baselib/node.py | read_nodes | def read_nodes(fname, filter_elem, nodefactory=Node, remove_comments=True):
"""
Convert an XML file into a lazy iterator over Node objects
satifying the given specification, i.e. a function element -> boolean.
:param fname: file name of file object
:param filter_elem: element specification
In ... | python | def read_nodes(fname, filter_elem, nodefactory=Node, remove_comments=True):
try:
for _, el in iterparse(fname, remove_comments=remove_comments):
if filter_elem(el):
yield node_from_elem(el, nodefactory)
el.clear()
except Exception:
etype, exc, t... | [
"def",
"read_nodes",
"(",
"fname",
",",
"filter_elem",
",",
"nodefactory",
"=",
"Node",
",",
"remove_comments",
"=",
"True",
")",
":",
"try",
":",
"for",
"_",
",",
"el",
"in",
"iterparse",
"(",
"fname",
",",
"remove_comments",
"=",
"remove_comments",
")",
... | Convert an XML file into a lazy iterator over Node objects
satifying the given specification, i.e. a function element -> boolean.
:param fname: file name of file object
:param filter_elem: element specification
In case of errors, add the file name to the error message. | [
"Convert",
"an",
"XML",
"file",
"into",
"a",
"lazy",
"iterator",
"over",
"Node",
"objects",
"satifying",
"the",
"given",
"specification",
"i",
".",
"e",
".",
"a",
"function",
"element",
"-",
">",
"boolean",
"."
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/baselib/node.py#L666-L686 |
gem/oq-engine | openquake/baselib/node.py | node_from_xml | def node_from_xml(xmlfile, nodefactory=Node):
"""
Convert a .xml file into a Node object.
:param xmlfile: a file name or file object open for reading
"""
root = parse(xmlfile).getroot()
return node_from_elem(root, nodefactory) | python | def node_from_xml(xmlfile, nodefactory=Node):
root = parse(xmlfile).getroot()
return node_from_elem(root, nodefactory) | [
"def",
"node_from_xml",
"(",
"xmlfile",
",",
"nodefactory",
"=",
"Node",
")",
":",
"root",
"=",
"parse",
"(",
"xmlfile",
")",
".",
"getroot",
"(",
")",
"return",
"node_from_elem",
"(",
"root",
",",
"nodefactory",
")"
] | Convert a .xml file into a Node object.
:param xmlfile: a file name or file object open for reading | [
"Convert",
"a",
".",
"xml",
"file",
"into",
"a",
"Node",
"object",
"."
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/baselib/node.py#L689-L696 |
gem/oq-engine | openquake/baselib/node.py | node_to_xml | def node_to_xml(node, output=sys.stdout, nsmap=None):
"""
Convert a Node object into a pretty .xml file without keeping
everything in memory. If you just want the string representation
use tostring(node).
:param node: a Node-compatible object (ElementTree nodes are fine)
:param nsmap: if given,... | python | def node_to_xml(node, output=sys.stdout, nsmap=None):
if nsmap:
for ns, prefix in nsmap.items():
if prefix:
node['xmlns:' + prefix[:-1]] = ns
else:
node['xmlns'] = ns
with StreamingXMLWriter(output, nsmap=nsmap) as w:
w.serialize(node) | [
"def",
"node_to_xml",
"(",
"node",
",",
"output",
"=",
"sys",
".",
"stdout",
",",
"nsmap",
"=",
"None",
")",
":",
"if",
"nsmap",
":",
"for",
"ns",
",",
"prefix",
"in",
"nsmap",
".",
"items",
"(",
")",
":",
"if",
"prefix",
":",
"node",
"[",
"'xmln... | Convert a Node object into a pretty .xml file without keeping
everything in memory. If you just want the string representation
use tostring(node).
:param node: a Node-compatible object (ElementTree nodes are fine)
:param nsmap: if given, shorten the tags with aliases | [
"Convert",
"a",
"Node",
"object",
"into",
"a",
"pretty",
".",
"xml",
"file",
"without",
"keeping",
"everything",
"in",
"memory",
".",
"If",
"you",
"just",
"want",
"the",
"string",
"representation",
"use",
"tostring",
"(",
"node",
")",
"."
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/baselib/node.py#L699-L716 |
gem/oq-engine | openquake/baselib/node.py | node_from_ini | def node_from_ini(ini_file, nodefactory=Node, root_name='ini'):
"""
Convert a .ini file into a Node object.
:param ini_file: a filename or a file like object in read mode
"""
fileobj = open(ini_file) if isinstance(ini_file, str) else ini_file
cfp = configparser.RawConfigParser()
cfp.read_fi... | python | def node_from_ini(ini_file, nodefactory=Node, root_name='ini'):
fileobj = open(ini_file) if isinstance(ini_file, str) else ini_file
cfp = configparser.RawConfigParser()
cfp.read_file(fileobj)
root = nodefactory(root_name)
sections = cfp.sections()
for section in sections:
params = d... | [
"def",
"node_from_ini",
"(",
"ini_file",
",",
"nodefactory",
"=",
"Node",
",",
"root_name",
"=",
"'ini'",
")",
":",
"fileobj",
"=",
"open",
"(",
"ini_file",
")",
"if",
"isinstance",
"(",
"ini_file",
",",
"str",
")",
"else",
"ini_file",
"cfp",
"=",
"confi... | Convert a .ini file into a Node object.
:param ini_file: a filename or a file like object in read mode | [
"Convert",
"a",
".",
"ini",
"file",
"into",
"a",
"Node",
"object",
"."
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/baselib/node.py#L719-L733 |
gem/oq-engine | openquake/baselib/node.py | node_to_ini | def node_to_ini(node, output=sys.stdout):
"""
Convert a Node object with the right structure into a .ini file.
:params node: a Node object
:params output: a file-like object opened in write mode
"""
for subnode in node:
output.write(u'\n[%s]\n' % subnode.tag)
for name, value in ... | python | def node_to_ini(node, output=sys.stdout):
for subnode in node:
output.write(u'\n[%s]\n' % subnode.tag)
for name, value in sorted(subnode.attrib.items()):
output.write(u'%s=%s\n' % (name, value))
output.flush() | [
"def",
"node_to_ini",
"(",
"node",
",",
"output",
"=",
"sys",
".",
"stdout",
")",
":",
"for",
"subnode",
"in",
"node",
":",
"output",
".",
"write",
"(",
"u'\\n[%s]\\n'",
"%",
"subnode",
".",
"tag",
")",
"for",
"name",
",",
"value",
"in",
"sorted",
"(... | Convert a Node object with the right structure into a .ini file.
:params node: a Node object
:params output: a file-like object opened in write mode | [
"Convert",
"a",
"Node",
"object",
"with",
"the",
"right",
"structure",
"into",
"a",
".",
"ini",
"file",
"."
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/baselib/node.py#L736-L747 |
gem/oq-engine | openquake/baselib/node.py | node_copy | def node_copy(node, nodefactory=Node):
"""Make a deep copy of the node"""
return nodefactory(node.tag, node.attrib.copy(), node.text,
[node_copy(n, nodefactory) for n in node]) | python | def node_copy(node, nodefactory=Node):
return nodefactory(node.tag, node.attrib.copy(), node.text,
[node_copy(n, nodefactory) for n in node]) | [
"def",
"node_copy",
"(",
"node",
",",
"nodefactory",
"=",
"Node",
")",
":",
"return",
"nodefactory",
"(",
"node",
".",
"tag",
",",
"node",
".",
"attrib",
".",
"copy",
"(",
")",
",",
"node",
".",
"text",
",",
"[",
"node_copy",
"(",
"n",
",",
"nodefa... | Make a deep copy of the node | [
"Make",
"a",
"deep",
"copy",
"of",
"the",
"node"
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/baselib/node.py#L750-L753 |
gem/oq-engine | openquake/baselib/node.py | context | def context(fname, node):
"""
Context manager managing exceptions and adding line number of the
current node and name of the current file to the error message.
:param fname: the current file being processed
:param node: the current node being processed
"""
try:
yield node
except... | python | def context(fname, node):
try:
yield node
except Exception:
etype, exc, tb = sys.exc_info()
msg = 'node %s: %s, line %s of %s' % (
striptag(node.tag), exc, getattr(node, 'lineno', '?'), fname)
raise_(etype, msg, tb) | [
"def",
"context",
"(",
"fname",
",",
"node",
")",
":",
"try",
":",
"yield",
"node",
"except",
"Exception",
":",
"etype",
",",
"exc",
",",
"tb",
"=",
"sys",
".",
"exc_info",
"(",
")",
"msg",
"=",
"'node %s: %s, line %s of %s'",
"%",
"(",
"striptag",
"("... | Context manager managing exceptions and adding line number of the
current node and name of the current file to the error message.
:param fname: the current file being processed
:param node: the current node being processed | [
"Context",
"manager",
"managing",
"exceptions",
"and",
"adding",
"line",
"number",
"of",
"the",
"current",
"node",
"and",
"name",
"of",
"the",
"current",
"file",
"to",
"the",
"error",
"message",
"."
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/baselib/node.py#L757-L771 |
gem/oq-engine | openquake/baselib/node.py | StreamingXMLWriter.shorten | def shorten(self, tag):
"""
Get the short representation of a fully qualified tag
:param str tag: a (fully qualified or not) XML tag
"""
if tag.startswith('{'):
ns, _tag = tag.rsplit('}')
tag = self.nsmap.get(ns[1:], '') + _tag
return tag | python | def shorten(self, tag):
if tag.startswith('{'):
ns, _tag = tag.rsplit('}')
tag = self.nsmap.get(ns[1:], '') + _tag
return tag | [
"def",
"shorten",
"(",
"self",
",",
"tag",
")",
":",
"if",
"tag",
".",
"startswith",
"(",
"'{'",
")",
":",
"ns",
",",
"_tag",
"=",
"tag",
".",
"rsplit",
"(",
"'}'",
")",
"tag",
"=",
"self",
".",
"nsmap",
".",
"get",
"(",
"ns",
"[",
"1",
":",
... | Get the short representation of a fully qualified tag
:param str tag: a (fully qualified or not) XML tag | [
"Get",
"the",
"short",
"representation",
"of",
"a",
"fully",
"qualified",
"tag"
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/baselib/node.py#L254-L263 |
gem/oq-engine | openquake/baselib/node.py | StreamingXMLWriter._write | def _write(self, text):
"""Write text by respecting the current indentlevel"""
spaces = ' ' * (self.indent * self.indentlevel)
t = spaces + text.strip() + '\n'
if hasattr(t, 'encode'):
t = t.encode(self.encoding, 'xmlcharrefreplace')
self.stream.write(t) | python | def _write(self, text):
spaces = ' ' * (self.indent * self.indentlevel)
t = spaces + text.strip() + '\n'
if hasattr(t, 'encode'):
t = t.encode(self.encoding, 'xmlcharrefreplace')
self.stream.write(t) | [
"def",
"_write",
"(",
"self",
",",
"text",
")",
":",
"spaces",
"=",
"' '",
"*",
"(",
"self",
".",
"indent",
"*",
"self",
".",
"indentlevel",
")",
"t",
"=",
"spaces",
"+",
"text",
".",
"strip",
"(",
")",
"+",
"'\\n'",
"if",
"hasattr",
"(",
"t",
... | Write text by respecting the current indentlevel | [
"Write",
"text",
"by",
"respecting",
"the",
"current",
"indentlevel"
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/baselib/node.py#L265-L271 |
gem/oq-engine | openquake/baselib/node.py | StreamingXMLWriter.emptyElement | def emptyElement(self, name, attrs):
"""Add an empty element (may have attributes)"""
attr = ' '.join('%s=%s' % (n, quoteattr(scientificformat(v)))
for n, v in sorted(attrs.items()))
self._write('<%s %s/>' % (name, attr)) | python | def emptyElement(self, name, attrs):
attr = ' '.join('%s=%s' % (n, quoteattr(scientificformat(v)))
for n, v in sorted(attrs.items()))
self._write('<%s %s/>' % (name, attr)) | [
"def",
"emptyElement",
"(",
"self",
",",
"name",
",",
"attrs",
")",
":",
"attr",
"=",
"' '",
".",
"join",
"(",
"'%s=%s'",
"%",
"(",
"n",
",",
"quoteattr",
"(",
"scientificformat",
"(",
"v",
")",
")",
")",
"for",
"n",
",",
"v",
"in",
"sorted",
"("... | Add an empty element (may have attributes) | [
"Add",
"an",
"empty",
"element",
"(",
"may",
"have",
"attributes",
")"
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/baselib/node.py#L273-L277 |
gem/oq-engine | openquake/baselib/node.py | StreamingXMLWriter.start_tag | def start_tag(self, name, attrs=None):
"""Open an XML tag"""
if not attrs:
self._write('<%s>' % name)
else:
self._write('<' + name)
for (name, value) in sorted(attrs.items()):
self._write(
' %s=%s' % (name, quoteattr(scienti... | python | def start_tag(self, name, attrs=None):
if not attrs:
self._write('<%s>' % name)
else:
self._write('<' + name)
for (name, value) in sorted(attrs.items()):
self._write(
' %s=%s' % (name, quoteattr(scientificformat(value))))
... | [
"def",
"start_tag",
"(",
"self",
",",
"name",
",",
"attrs",
"=",
"None",
")",
":",
"if",
"not",
"attrs",
":",
"self",
".",
"_write",
"(",
"'<%s>'",
"%",
"name",
")",
"else",
":",
"self",
".",
"_write",
"(",
"'<'",
"+",
"name",
")",
"for",
"(",
... | Open an XML tag | [
"Open",
"an",
"XML",
"tag"
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/baselib/node.py#L279-L289 |
gem/oq-engine | openquake/baselib/node.py | StreamingXMLWriter.serialize | def serialize(self, node):
"""Serialize a node object (typically an ElementTree object)"""
if isinstance(node.tag, types.FunctionType):
# this looks like a bug of ElementTree: comments are stored as
# functions!?? see https://hg.python.org/sandbox/python2.7/file/tip/Lib/xml/etree... | python | def serialize(self, node):
if isinstance(node.tag, types.FunctionType):
return
if self.nsmap is not None:
tag = self.shorten(node.tag)
else:
tag = node.tag
with warnings.catch_warnings():
warnings.simple... | [
"def",
"serialize",
"(",
"self",
",",
"node",
")",
":",
"if",
"isinstance",
"(",
"node",
".",
"tag",
",",
"types",
".",
"FunctionType",
")",
":",
"# this looks like a bug of ElementTree: comments are stored as",
"# functions!?? see https://hg.python.org/sandbox/python2.7/fi... | Serialize a node object (typically an ElementTree object) | [
"Serialize",
"a",
"node",
"object",
"(",
"typically",
"an",
"ElementTree",
"object",
")"
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/baselib/node.py#L296-L321 |
gem/oq-engine | openquake/baselib/node.py | Node.getnodes | def getnodes(self, name):
"Return the direct subnodes with name 'name'"
for node in self.nodes:
if striptag(node.tag) == name:
yield node | python | def getnodes(self, name):
"Return the direct subnodes with name 'name'"
for node in self.nodes:
if striptag(node.tag) == name:
yield node | [
"def",
"getnodes",
"(",
"self",
",",
"name",
")",
":",
"for",
"node",
"in",
"self",
".",
"nodes",
":",
"if",
"striptag",
"(",
"node",
".",
"tag",
")",
"==",
"name",
":",
"yield",
"node"
] | Return the direct subnodes with name 'name | [
"Return",
"the",
"direct",
"subnodes",
"with",
"name",
"name"
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/baselib/node.py#L458-L462 |
gem/oq-engine | openquake/baselib/node.py | Node.append | def append(self, node):
"Append a new subnode"
if not isinstance(node, self.__class__):
raise TypeError('Expected Node instance, got %r' % node)
self.nodes.append(node) | python | def append(self, node):
"Append a new subnode"
if not isinstance(node, self.__class__):
raise TypeError('Expected Node instance, got %r' % node)
self.nodes.append(node) | [
"def",
"append",
"(",
"self",
",",
"node",
")",
":",
"if",
"not",
"isinstance",
"(",
"node",
",",
"self",
".",
"__class__",
")",
":",
"raise",
"TypeError",
"(",
"'Expected Node instance, got %r'",
"%",
"node",
")",
"self",
".",
"nodes",
".",
"append",
"(... | Append a new subnode | [
"Append",
"a",
"new",
"subnode"
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/baselib/node.py#L464-L468 |
gem/oq-engine | openquake/baselib/node.py | Node.to_str | def to_str(self, expandattrs=True, expandvals=True):
"""
Convert the node into a string, intended for testing/debugging purposes
:param expandattrs:
print the values of the attributes if True, else print only the names
:param expandvals:
print the values if True, els... | python | def to_str(self, expandattrs=True, expandvals=True):
out = io.BytesIO()
node_display(self, expandattrs, expandvals, out)
return decode(out.getvalue()) | [
"def",
"to_str",
"(",
"self",
",",
"expandattrs",
"=",
"True",
",",
"expandvals",
"=",
"True",
")",
":",
"out",
"=",
"io",
".",
"BytesIO",
"(",
")",
"node_display",
"(",
"self",
",",
"expandattrs",
",",
"expandvals",
",",
"out",
")",
"return",
"decode"... | Convert the node into a string, intended for testing/debugging purposes
:param expandattrs:
print the values of the attributes if True, else print only the names
:param expandvals:
print the values if True, else print only the tag names | [
"Convert",
"the",
"node",
"into",
"a",
"string",
"intended",
"for",
"testing",
"/",
"debugging",
"purposes"
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/baselib/node.py#L470-L481 |
gem/oq-engine | openquake/baselib/node.py | ValidatingXmlParser.parse_bytes | def parse_bytes(self, bytestr, isfinal=True):
"""
Parse a byte string. If the string is very large, split it in chuncks
and parse each chunk with isfinal=False, then parse an empty chunk
with isfinal=True.
"""
with self._context():
self.filename = None
... | python | def parse_bytes(self, bytestr, isfinal=True):
with self._context():
self.filename = None
self.p.Parse(bytestr, isfinal)
return self._root | [
"def",
"parse_bytes",
"(",
"self",
",",
"bytestr",
",",
"isfinal",
"=",
"True",
")",
":",
"with",
"self",
".",
"_context",
"(",
")",
":",
"self",
".",
"filename",
"=",
"None",
"self",
".",
"p",
".",
"Parse",
"(",
"bytestr",
",",
"isfinal",
")",
"re... | Parse a byte string. If the string is very large, split it in chuncks
and parse each chunk with isfinal=False, then parse an empty chunk
with isfinal=True. | [
"Parse",
"a",
"byte",
"string",
".",
"If",
"the",
"string",
"is",
"very",
"large",
"split",
"it",
"in",
"chuncks",
"and",
"parse",
"each",
"chunk",
"with",
"isfinal",
"=",
"False",
"then",
"parse",
"an",
"empty",
"chunk",
"with",
"isfinal",
"=",
"True",
... | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/baselib/node.py#L815-L824 |
gem/oq-engine | openquake/baselib/node.py | ValidatingXmlParser.parse_file | def parse_file(self, file_or_fname):
"""
Parse a file or a filename
"""
with self._context():
if hasattr(file_or_fname, 'read'):
self.filename = getattr(
file_or_fname, 'name', file_or_fname.__class__.__name__)
self.p.ParseF... | python | def parse_file(self, file_or_fname):
with self._context():
if hasattr(file_or_fname, 'read'):
self.filename = getattr(
file_or_fname, 'name', file_or_fname.__class__.__name__)
self.p.ParseFile(file_or_fname)
else:
... | [
"def",
"parse_file",
"(",
"self",
",",
"file_or_fname",
")",
":",
"with",
"self",
".",
"_context",
"(",
")",
":",
"if",
"hasattr",
"(",
"file_or_fname",
",",
"'read'",
")",
":",
"self",
".",
"filename",
"=",
"getattr",
"(",
"file_or_fname",
",",
"'name'"... | Parse a file or a filename | [
"Parse",
"a",
"file",
"or",
"a",
"filename"
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/baselib/node.py#L826-L839 |
gem/oq-engine | openquake/hmtk/plotting/seismicity/completeness/cumulative_rate_analysis.py | SimpleCumulativeRate.completeness | def completeness(self, catalogue, config, saveplot=False, filetype='png',
timeout=120):
'''
:param catalogue:
Earthquake catalogue as instance of
:class:`openquake.hmtk.seismicity.catalogue.Catalogue`
:param dict config:
Configuration para... | python | def completeness(self, catalogue, config, saveplot=False, filetype='png',
timeout=120):
if saveplot and not isinstance(saveplot, str):
raise ValueError('To save the figures enter a filename: ')
magnitude_bins = self._get_magnitudes_from_spacing(
... | [
"def",
"completeness",
"(",
"self",
",",
"catalogue",
",",
"config",
",",
"saveplot",
"=",
"False",
",",
"filetype",
"=",
"'png'",
",",
"timeout",
"=",
"120",
")",
":",
"if",
"saveplot",
"and",
"not",
"isinstance",
"(",
"saveplot",
",",
"str",
")",
":"... | :param catalogue:
Earthquake catalogue as instance of
:class:`openquake.hmtk.seismicity.catalogue.Catalogue`
:param dict config:
Configuration parameters of the algorithm, containing the
following information:
'magnitude_bin' Size of magnitude bin (non... | [
":",
"param",
"catalogue",
":",
"Earthquake",
"catalogue",
"as",
"instance",
"of",
":",
"class",
":",
"openquake",
".",
"hmtk",
".",
"seismicity",
".",
"catalogue",
".",
"Catalogue",
":",
"param",
"dict",
"config",
":",
"Configuration",
"parameters",
"of",
"... | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/hmtk/plotting/seismicity/completeness/cumulative_rate_analysis.py#L67-L130 |
gem/oq-engine | openquake/hmtk/plotting/seismicity/completeness/cumulative_rate_analysis.py | SimpleCumulativeRate._get_magnitudes_from_spacing | def _get_magnitudes_from_spacing(self, magnitudes, delta_m):
'''If a single magnitude spacing is input then create the bins
:param numpy.ndarray magnitudes:
Vector of earthquake magnitudes
:param float delta_m:
Magnitude bin width
:returns: Vector of magnitude ... | python | def _get_magnitudes_from_spacing(self, magnitudes, delta_m):
min_mag = np.min(magnitudes)
max_mag = np.max(magnitudes)
if (max_mag - min_mag) < delta_m:
raise ValueError('Bin width greater than magnitude range!')
mag_bins = np.arange(np.floor(min_mag), np.ceil(max_ma... | [
"def",
"_get_magnitudes_from_spacing",
"(",
"self",
",",
"magnitudes",
",",
"delta_m",
")",
":",
"min_mag",
"=",
"np",
".",
"min",
"(",
"magnitudes",
")",
"max_mag",
"=",
"np",
".",
"max",
"(",
"magnitudes",
")",
"if",
"(",
"max_mag",
"-",
"min_mag",
")"... | If a single magnitude spacing is input then create the bins
:param numpy.ndarray magnitudes:
Vector of earthquake magnitudes
:param float delta_m:
Magnitude bin width
:returns: Vector of magnitude bin edges (numpy.ndarray) | [
"If",
"a",
"single",
"magnitude",
"spacing",
"is",
"input",
"then",
"create",
"the",
"bins"
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/hmtk/plotting/seismicity/completeness/cumulative_rate_analysis.py#L132-L152 |
gem/oq-engine | openquake/hmtk/seismicity/catalogue.py | _merge_data | def _merge_data(dat1, dat2):
"""
Merge two data dictionaries containing catalogue data
:parameter dictionary dat1:
Catalogue data dictionary
:parameter dictionary dat2:
Catalogue data dictionary
:returns:
A catalogue data dictionary containing the information originally
... | python | def _merge_data(dat1, dat2):
cnt = 0
for key in dat1:
flg1 = len(dat1[key]) > 0
flg2 = len(dat2[key]) > 0
if flg1 != flg2:
cnt += 1
if cnt:
raise Warning('Cannot merge catalogues with different' +
' attributes')
return None
... | [
"def",
"_merge_data",
"(",
"dat1",
",",
"dat2",
")",
":",
"cnt",
"=",
"0",
"for",
"key",
"in",
"dat1",
":",
"flg1",
"=",
"len",
"(",
"dat1",
"[",
"key",
"]",
")",
">",
"0",
"flg2",
"=",
"len",
"(",
"dat2",
"[",
"key",
"]",
")",
">",
"0",
"i... | Merge two data dictionaries containing catalogue data
:parameter dictionary dat1:
Catalogue data dictionary
:parameter dictionary dat2:
Catalogue data dictionary
:returns:
A catalogue data dictionary containing the information originally
included in dat1 and dat2 | [
"Merge",
"two",
"data",
"dictionaries",
"containing",
"catalogue",
"data"
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/hmtk/seismicity/catalogue.py#L566-L600 |
gem/oq-engine | openquake/hmtk/seismicity/catalogue.py | Catalogue._get_row_str | def _get_row_str(self, i):
"""
Returns a string representation of the key information in a row
"""
row_data = ["{:s}".format(self.data['eventID'][i]),
"{:g}".format(self.data['year'][i]),
"{:g}".format(self.data['month'][i]),
"{... | python | def _get_row_str(self, i):
row_data = ["{:s}".format(self.data['eventID'][i]),
"{:g}".format(self.data['year'][i]),
"{:g}".format(self.data['month'][i]),
"{:g}".format(self.data['day'][i]),
"{:g}".format(self.data['hour'][i... | [
"def",
"_get_row_str",
"(",
"self",
",",
"i",
")",
":",
"row_data",
"=",
"[",
"\"{:s}\"",
".",
"format",
"(",
"self",
".",
"data",
"[",
"'eventID'",
"]",
"[",
"i",
"]",
")",
",",
"\"{:g}\"",
".",
"format",
"(",
"self",
".",
"data",
"[",
"'year'",
... | Returns a string representation of the key information in a row | [
"Returns",
"a",
"string",
"representation",
"of",
"the",
"key",
"information",
"in",
"a",
"row"
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/hmtk/seismicity/catalogue.py#L138-L153 |
gem/oq-engine | openquake/hmtk/seismicity/catalogue.py | Catalogue.write_catalogue | def write_catalogue(self, output_file, key_list=SORTED_ATTRIBUTE_LIST):
"""
Writes the catalogue to file using HTMK format (CSV).
:param output_file:
Name of the output file
:param key_list:
Optional list of attribute keys to be exported
"""
with... | python | def write_catalogue(self, output_file, key_list=SORTED_ATTRIBUTE_LIST):
with open(output_file, 'w') as of:
writer = csv.DictWriter(of, fieldnames=key_list)
writer.writeheader()
for i in range(self.get_number_events()):
row_dict = {}
f... | [
"def",
"write_catalogue",
"(",
"self",
",",
"output_file",
",",
"key_list",
"=",
"SORTED_ATTRIBUTE_LIST",
")",
":",
"with",
"open",
"(",
"output_file",
",",
"'w'",
")",
"as",
"of",
":",
"writer",
"=",
"csv",
".",
"DictWriter",
"(",
"of",
",",
"fieldnames",... | Writes the catalogue to file using HTMK format (CSV).
:param output_file:
Name of the output file
:param key_list:
Optional list of attribute keys to be exported | [
"Writes",
"the",
"catalogue",
"to",
"file",
"using",
"HTMK",
"format",
"(",
"CSV",
")",
"."
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/hmtk/seismicity/catalogue.py#L192-L221 |
gem/oq-engine | openquake/hmtk/seismicity/catalogue.py | Catalogue.load_to_array | def load_to_array(self, keys):
"""
This loads the data contained in the catalogue into a numpy array. The
method works only for float data
:param keys:
A list of keys to be uploaded into the array
:type list:
"""
# Preallocate the numpy array
... | python | def load_to_array(self, keys):
data = np.empty((len(self.data[keys[0]]), len(keys)))
for i in range(0, len(self.data[keys[0]])):
for j, key in enumerate(keys):
data[i, j] = self.data[key][i]
return data | [
"def",
"load_to_array",
"(",
"self",
",",
"keys",
")",
":",
"# Preallocate the numpy array",
"data",
"=",
"np",
".",
"empty",
"(",
"(",
"len",
"(",
"self",
".",
"data",
"[",
"keys",
"[",
"0",
"]",
"]",
")",
",",
"len",
"(",
"keys",
")",
")",
")",
... | This loads the data contained in the catalogue into a numpy array. The
method works only for float data
:param keys:
A list of keys to be uploaded into the array
:type list: | [
"This",
"loads",
"the",
"data",
"contained",
"in",
"the",
"catalogue",
"into",
"a",
"numpy",
"array",
".",
"The",
"method",
"works",
"only",
"for",
"float",
"data"
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/hmtk/seismicity/catalogue.py#L223-L237 |
gem/oq-engine | openquake/hmtk/seismicity/catalogue.py | Catalogue.load_from_array | def load_from_array(self, keys, data_array):
"""
This loads the data contained in an array into the catalogue object
:param keys:
A list of keys explaining the content of the columns in the array
:type list:
"""
if len(keys) != np.shape(data_array)[1]:
... | python | def load_from_array(self, keys, data_array):
if len(keys) != np.shape(data_array)[1]:
raise ValueError('Key list does not match shape of array!')
for i, key in enumerate(keys):
if key in self.INT_ATTRIBUTE_LIST:
self.data[key] = data_array[:, i].astype(... | [
"def",
"load_from_array",
"(",
"self",
",",
"keys",
",",
"data_array",
")",
":",
"if",
"len",
"(",
"keys",
")",
"!=",
"np",
".",
"shape",
"(",
"data_array",
")",
"[",
"1",
"]",
":",
"raise",
"ValueError",
"(",
"'Key list does not match shape of array!'",
"... | This loads the data contained in an array into the catalogue object
:param keys:
A list of keys explaining the content of the columns in the array
:type list: | [
"This",
"loads",
"the",
"data",
"contained",
"in",
"an",
"array",
"into",
"the",
"catalogue",
"object"
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/hmtk/seismicity/catalogue.py#L239-L259 |
gem/oq-engine | openquake/hmtk/seismicity/catalogue.py | Catalogue.catalogue_mt_filter | def catalogue_mt_filter(self, mt_table, flag=None):
"""
Filter the catalogue using a magnitude-time table. The table has
two columns and n-rows.
:param nump.ndarray mt_table:
Magnitude time table with n-rows where column 1 is year and column
2 is magnitude
... | python | def catalogue_mt_filter(self, mt_table, flag=None):
if flag is None:
flag = np.ones(self.get_number_events(), dtype=bool)
for comp_val in mt_table:
id0 = np.logical_and(self.data['year'].astype(float) < comp_val[0],
self.dat... | [
"def",
"catalogue_mt_filter",
"(",
"self",
",",
"mt_table",
",",
"flag",
"=",
"None",
")",
":",
"if",
"flag",
"is",
"None",
":",
"# No flag defined, therefore all events are initially valid",
"flag",
"=",
"np",
".",
"ones",
"(",
"self",
".",
"get_number_events",
... | Filter the catalogue using a magnitude-time table. The table has
two columns and n-rows.
:param nump.ndarray mt_table:
Magnitude time table with n-rows where column 1 is year and column
2 is magnitude | [
"Filter",
"the",
"catalogue",
"using",
"a",
"magnitude",
"-",
"time",
"table",
".",
"The",
"table",
"has",
"two",
"columns",
"and",
"n",
"-",
"rows",
"."
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/hmtk/seismicity/catalogue.py#L282-L302 |
gem/oq-engine | openquake/hmtk/seismicity/catalogue.py | Catalogue.get_bounding_box | def get_bounding_box(self):
"""
Returns the bounding box of the catalogue
:returns: (West, East, South, North)
"""
return (np.min(self.data["longitude"]),
np.max(self.data["longitude"]),
np.min(self.data["latitude"]),
np.max(self.d... | python | def get_bounding_box(self):
return (np.min(self.data["longitude"]),
np.max(self.data["longitude"]),
np.min(self.data["latitude"]),
np.max(self.data["latitude"])) | [
"def",
"get_bounding_box",
"(",
"self",
")",
":",
"return",
"(",
"np",
".",
"min",
"(",
"self",
".",
"data",
"[",
"\"longitude\"",
"]",
")",
",",
"np",
".",
"max",
"(",
"self",
".",
"data",
"[",
"\"longitude\"",
"]",
")",
",",
"np",
".",
"min",
"... | Returns the bounding box of the catalogue
:returns: (West, East, South, North) | [
"Returns",
"the",
"bounding",
"box",
"of",
"the",
"catalogue"
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/hmtk/seismicity/catalogue.py#L304-L313 |
gem/oq-engine | openquake/hmtk/seismicity/catalogue.py | Catalogue.get_observed_mmax_sigma | def get_observed_mmax_sigma(self, default=None):
"""
:returns: the sigma for the maximum observed magnitude
"""
if not isinstance(self.data['sigmaMagnitude'], np.ndarray):
obsmaxsig = default
else:
obsmaxsig = self.data['sigmaMagnitude'][
n... | python | def get_observed_mmax_sigma(self, default=None):
if not isinstance(self.data['sigmaMagnitude'], np.ndarray):
obsmaxsig = default
else:
obsmaxsig = self.data['sigmaMagnitude'][
np.argmax(self.data['magnitude'])]
return obsmaxsig | [
"def",
"get_observed_mmax_sigma",
"(",
"self",
",",
"default",
"=",
"None",
")",
":",
"if",
"not",
"isinstance",
"(",
"self",
".",
"data",
"[",
"'sigmaMagnitude'",
"]",
",",
"np",
".",
"ndarray",
")",
":",
"obsmaxsig",
"=",
"default",
"else",
":",
"obsma... | :returns: the sigma for the maximum observed magnitude | [
":",
"returns",
":",
"the",
"sigma",
"for",
"the",
"maximum",
"observed",
"magnitude"
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/hmtk/seismicity/catalogue.py#L315-L324 |
gem/oq-engine | openquake/hmtk/seismicity/catalogue.py | Catalogue.get_decimal_time | def get_decimal_time(self):
'''
Returns the time of the catalogue as a decimal
'''
return decimal_time(self.data['year'],
self.data['month'],
self.data['day'],
self.data['hour'],
... | python | def get_decimal_time(self):
return decimal_time(self.data['year'],
self.data['month'],
self.data['day'],
self.data['hour'],
self.data['minute'],
self.data['second'... | [
"def",
"get_decimal_time",
"(",
"self",
")",
":",
"return",
"decimal_time",
"(",
"self",
".",
"data",
"[",
"'year'",
"]",
",",
"self",
".",
"data",
"[",
"'month'",
"]",
",",
"self",
".",
"data",
"[",
"'day'",
"]",
",",
"self",
".",
"data",
"[",
"'h... | Returns the time of the catalogue as a decimal | [
"Returns",
"the",
"time",
"of",
"the",
"catalogue",
"as",
"a",
"decimal"
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/hmtk/seismicity/catalogue.py#L326-L335 |
gem/oq-engine | openquake/hmtk/seismicity/catalogue.py | Catalogue.sort_catalogue_chronologically | def sort_catalogue_chronologically(self):
'''
Sorts the catalogue into chronological order
'''
dec_time = self.get_decimal_time()
idx = np.argsort(dec_time)
if np.all((idx[1:] - idx[:-1]) > 0.):
# Catalogue was already in chronological order
return... | python | def sort_catalogue_chronologically(self):
dec_time = self.get_decimal_time()
idx = np.argsort(dec_time)
if np.all((idx[1:] - idx[:-1]) > 0.):
return
self.select_catalogue_events(idx) | [
"def",
"sort_catalogue_chronologically",
"(",
"self",
")",
":",
"dec_time",
"=",
"self",
".",
"get_decimal_time",
"(",
")",
"idx",
"=",
"np",
".",
"argsort",
"(",
"dec_time",
")",
"if",
"np",
".",
"all",
"(",
"(",
"idx",
"[",
"1",
":",
"]",
"-",
"idx... | Sorts the catalogue into chronological order | [
"Sorts",
"the",
"catalogue",
"into",
"chronological",
"order"
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/hmtk/seismicity/catalogue.py#L353-L362 |
gem/oq-engine | openquake/hmtk/seismicity/catalogue.py | Catalogue.purge_catalogue | def purge_catalogue(self, flag_vector):
'''
Purges present catalogue with invalid events defined by flag_vector
:param numpy.ndarray flag_vector:
Boolean vector showing if events are selected (True) or not (False)
'''
id0 = np.where(flag_vector)[0]
self.sele... | python | def purge_catalogue(self, flag_vector):
id0 = np.where(flag_vector)[0]
self.select_catalogue_events(id0)
self.get_number_events() | [
"def",
"purge_catalogue",
"(",
"self",
",",
"flag_vector",
")",
":",
"id0",
"=",
"np",
".",
"where",
"(",
"flag_vector",
")",
"[",
"0",
"]",
"self",
".",
"select_catalogue_events",
"(",
"id0",
")",
"self",
".",
"get_number_events",
"(",
")"
] | Purges present catalogue with invalid events defined by flag_vector
:param numpy.ndarray flag_vector:
Boolean vector showing if events are selected (True) or not (False) | [
"Purges",
"present",
"catalogue",
"with",
"invalid",
"events",
"defined",
"by",
"flag_vector"
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/hmtk/seismicity/catalogue.py#L364-L374 |
gem/oq-engine | openquake/hmtk/seismicity/catalogue.py | Catalogue.select_catalogue_events | def select_catalogue_events(self, id0):
'''
Orders the events in the catalogue according to an indexing vector.
:param np.ndarray id0:
Pointer array indicating the locations of selected events
'''
for key in self.data:
if isinstance(
s... | python | def select_catalogue_events(self, id0):
for key in self.data:
if isinstance(
self.data[key], np.ndarray) and len(self.data[key]) > 0:
self.data[key] = self.data[key][id0]
elif isinstance(
self.data[key], li... | [
"def",
"select_catalogue_events",
"(",
"self",
",",
"id0",
")",
":",
"for",
"key",
"in",
"self",
".",
"data",
":",
"if",
"isinstance",
"(",
"self",
".",
"data",
"[",
"key",
"]",
",",
"np",
".",
"ndarray",
")",
"and",
"len",
"(",
"self",
".",
"data"... | Orders the events in the catalogue according to an indexing vector.
:param np.ndarray id0:
Pointer array indicating the locations of selected events | [
"Orders",
"the",
"events",
"in",
"the",
"catalogue",
"according",
"to",
"an",
"indexing",
"vector",
"."
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/hmtk/seismicity/catalogue.py#L376-L393 |
gem/oq-engine | openquake/hmtk/seismicity/catalogue.py | Catalogue.get_depth_distribution | def get_depth_distribution(self, depth_bins, normalisation=False,
bootstrap=None):
'''
Gets the depth distribution of the earthquake catalogue to return a
single histogram. Depths may be normalised. If uncertainties are found
in the catalogue the distrbutio... | python | def get_depth_distribution(self, depth_bins, normalisation=False,
bootstrap=None):
if len(self.data['depth']) == 0:
raise ValueError('Depths missing in catalogue')
if len(self.data['depthError']) == 0:
self.data['depthError'] ... | [
"def",
"get_depth_distribution",
"(",
"self",
",",
"depth_bins",
",",
"normalisation",
"=",
"False",
",",
"bootstrap",
"=",
"None",
")",
":",
"if",
"len",
"(",
"self",
".",
"data",
"[",
"'depth'",
"]",
")",
"==",
"0",
":",
"# If depth information is missing"... | Gets the depth distribution of the earthquake catalogue to return a
single histogram. Depths may be normalised. If uncertainties are found
in the catalogue the distrbution may be bootstrap sampled
:param numpy.ndarray depth_bins:
getBin edges for the depths
:param bool nor... | [
"Gets",
"the",
"depth",
"distribution",
"of",
"the",
"earthquake",
"catalogue",
"to",
"return",
"a",
"single",
"histogram",
".",
"Depths",
"may",
"be",
"normalised",
".",
"If",
"uncertainties",
"are",
"found",
"in",
"the",
"catalogue",
"the",
"distrbution",
"m... | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/hmtk/seismicity/catalogue.py#L395-L429 |
gem/oq-engine | openquake/hmtk/seismicity/catalogue.py | Catalogue.get_depth_pmf | def get_depth_pmf(self, depth_bins, default_depth=5.0, bootstrap=None):
"""
Returns the depth distribution of the catalogue as a probability mass
function
"""
if len(self.data['depth']) == 0:
# If depth information is missing
return PMF([(1.0, default_dept... | python | def get_depth_pmf(self, depth_bins, default_depth=5.0, bootstrap=None):
if len(self.data['depth']) == 0:
return PMF([(1.0, default_depth)])
depth_hist = self.get_depth_distribution(depth_bins,
normalisation=True,... | [
"def",
"get_depth_pmf",
"(",
"self",
",",
"depth_bins",
",",
"default_depth",
"=",
"5.0",
",",
"bootstrap",
"=",
"None",
")",
":",
"if",
"len",
"(",
"self",
".",
"data",
"[",
"'depth'",
"]",
")",
"==",
"0",
":",
"# If depth information is missing",
"return... | Returns the depth distribution of the catalogue as a probability mass
function | [
"Returns",
"the",
"depth",
"distribution",
"of",
"the",
"catalogue",
"as",
"a",
"probability",
"mass",
"function"
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/hmtk/seismicity/catalogue.py#L431-L454 |
gem/oq-engine | openquake/hmtk/seismicity/catalogue.py | Catalogue.get_magnitude_depth_distribution | def get_magnitude_depth_distribution(self, magnitude_bins, depth_bins,
normalisation=False, bootstrap=None):
'''
Returns a 2-D magnitude-depth histogram for the catalogue
:param numpy.ndarray magnitude_bins:
Bin edges for the magnitudes
... | python | def get_magnitude_depth_distribution(self, magnitude_bins, depth_bins,
normalisation=False, bootstrap=None):
if len(self.data['depth']) == 0:
raise ValueError('Depths missing in catalogue')
if len(self.data['depthError']) == 0:
... | [
"def",
"get_magnitude_depth_distribution",
"(",
"self",
",",
"magnitude_bins",
",",
"depth_bins",
",",
"normalisation",
"=",
"False",
",",
"bootstrap",
"=",
"None",
")",
":",
"if",
"len",
"(",
"self",
".",
"data",
"[",
"'depth'",
"]",
")",
"==",
"0",
":",
... | Returns a 2-D magnitude-depth histogram for the catalogue
:param numpy.ndarray magnitude_bins:
Bin edges for the magnitudes
:param numpy.ndarray depth_bins:
Bin edges for the depths
:param bool normalisation:
Choose to normalise the results such that the t... | [
"Returns",
"a",
"2",
"-",
"D",
"magnitude",
"-",
"depth",
"histogram",
"for",
"the",
"catalogue"
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/hmtk/seismicity/catalogue.py#L456-L497 |
gem/oq-engine | openquake/hmtk/seismicity/catalogue.py | Catalogue.get_magnitude_time_distribution | def get_magnitude_time_distribution(self, magnitude_bins, time_bins,
normalisation=False, bootstrap=None):
'''
Returns a 2-D histogram indicating the number of earthquakes in a
set of time-magnitude bins. Time is in decimal years!
:param numpy.nda... | python | def get_magnitude_time_distribution(self, magnitude_bins, time_bins,
normalisation=False, bootstrap=None):
return bootstrap_histogram_2D(
self.get_decimal_time(),
self.data['magnitude'],
time_bins,
magnitude_bins,
... | [
"def",
"get_magnitude_time_distribution",
"(",
"self",
",",
"magnitude_bins",
",",
"time_bins",
",",
"normalisation",
"=",
"False",
",",
"bootstrap",
"=",
"None",
")",
":",
"return",
"bootstrap_histogram_2D",
"(",
"self",
".",
"get_decimal_time",
"(",
")",
",",
... | Returns a 2-D histogram indicating the number of earthquakes in a
set of time-magnitude bins. Time is in decimal years!
:param numpy.ndarray magnitude_bins:
Bin edges for the magnitudes
:param numpy.ndarray time_bins:
Bin edges for the times
:param bool normal... | [
"Returns",
"a",
"2",
"-",
"D",
"histogram",
"indicating",
"the",
"number",
"of",
"earthquakes",
"in",
"a",
"set",
"of",
"time",
"-",
"magnitude",
"bins",
".",
"Time",
"is",
"in",
"decimal",
"years!"
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/hmtk/seismicity/catalogue.py#L499-L529 |
gem/oq-engine | openquake/hmtk/seismicity/catalogue.py | Catalogue.concatenate | def concatenate(self, catalogue):
"""
This method attaches one catalogue to the current one
:parameter catalogue:
An instance of :class:`htmk.seismicity.catalogue.Catalogue`
"""
atts = getattr(self, 'data')
attn = getattr(catalogue, 'data')
data = _m... | python | def concatenate(self, catalogue):
atts = getattr(self, 'data')
attn = getattr(catalogue, 'data')
data = _merge_data(atts, attn)
if data is not None:
setattr(self, 'data', data)
for attrib in vars(self):
atts = getattr(self, attrib)
... | [
"def",
"concatenate",
"(",
"self",
",",
"catalogue",
")",
":",
"atts",
"=",
"getattr",
"(",
"self",
",",
"'data'",
")",
"attn",
"=",
"getattr",
"(",
"catalogue",
",",
"'data'",
")",
"data",
"=",
"_merge_data",
"(",
"atts",
",",
"attn",
")",
"if",
"da... | This method attaches one catalogue to the current one
:parameter catalogue:
An instance of :class:`htmk.seismicity.catalogue.Catalogue` | [
"This",
"method",
"attaches",
"one",
"catalogue",
"to",
"the",
"current",
"one"
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/hmtk/seismicity/catalogue.py#L531-L563 |
gem/oq-engine | openquake/calculators/classical_bcr.py | classical_bcr | def classical_bcr(riskinputs, riskmodel, param, monitor):
"""
Compute and return the average losses for each asset.
:param riskinputs:
:class:`openquake.risklib.riskinput.RiskInput` objects
:param riskmodel:
a :class:`openquake.risklib.riskinput.CompositeRiskModel` instance
:param p... | python | def classical_bcr(riskinputs, riskmodel, param, monitor):
R = riskinputs[0].hazard_getter.num_rlzs
result = AccumDict(accum=numpy.zeros((R, 3), F32))
for ri in riskinputs:
for out in riskmodel.gen_outputs(ri, monitor):
for asset, (eal_orig, eal_retro, bcr) in zip(
... | [
"def",
"classical_bcr",
"(",
"riskinputs",
",",
"riskmodel",
",",
"param",
",",
"monitor",
")",
":",
"R",
"=",
"riskinputs",
"[",
"0",
"]",
".",
"hazard_getter",
".",
"num_rlzs",
"result",
"=",
"AccumDict",
"(",
"accum",
"=",
"numpy",
".",
"zeros",
"(",
... | Compute and return the average losses for each asset.
:param riskinputs:
:class:`openquake.risklib.riskinput.RiskInput` objects
:param riskmodel:
a :class:`openquake.risklib.riskinput.CompositeRiskModel` instance
:param param:
dictionary of extra parameters
:param monitor:
... | [
"Compute",
"and",
"return",
"the",
"average",
"losses",
"for",
"each",
"asset",
"."
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/calculators/classical_bcr.py#L31-L53 |
gem/oq-engine | openquake/engine/engine.py | expose_outputs | def expose_outputs(dstore, owner=getpass.getuser(), status='complete'):
"""
Build a correspondence between the outputs in the datastore and the
ones in the database.
:param dstore: datastore
"""
oq = dstore['oqparam']
exportable = set(ekey[0] for ekey in export.export)
calcmode = oq.cal... | python | def expose_outputs(dstore, owner=getpass.getuser(), status='complete'):
oq = dstore['oqparam']
exportable = set(ekey[0] for ekey in export.export)
calcmode = oq.calculation_mode
dskeys = set(dstore) & exportable
dskeys.add('fullreport')
rlzs = dstore['csm_info'].rlzs
if len(rlzs) > 1:... | [
"def",
"expose_outputs",
"(",
"dstore",
",",
"owner",
"=",
"getpass",
".",
"getuser",
"(",
")",
",",
"status",
"=",
"'complete'",
")",
":",
"oq",
"=",
"dstore",
"[",
"'oqparam'",
"]",
"exportable",
"=",
"set",
"(",
"ekey",
"[",
"0",
"]",
"for",
"ekey... | Build a correspondence between the outputs in the datastore and the
ones in the database.
:param dstore: datastore | [
"Build",
"a",
"correspondence",
"between",
"the",
"outputs",
"in",
"the",
"datastore",
"and",
"the",
"ones",
"in",
"the",
"database",
"."
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/engine/engine.py#L119-L175 |
gem/oq-engine | openquake/engine/engine.py | raiseMasterKilled | def raiseMasterKilled(signum, _stack):
"""
When a SIGTERM is received, raise the MasterKilled
exception with an appropriate error message.
:param int signum: the number of the received signal
:param _stack: the current frame object, ignored
"""
# Disable further CTRL-C to allow tasks revoca... | python | def raiseMasterKilled(signum, _stack):
if OQ_DISTRIBUTE.startswith('celery'):
signal.signal(signal.SIGINT, inhibitSigInt)
msg = 'Received a signal %d' % signum
if signum in (signal.SIGTERM, signal.SIGINT):
msg = 'The openquake master process was killed manually'
... | [
"def",
"raiseMasterKilled",
"(",
"signum",
",",
"_stack",
")",
":",
"# Disable further CTRL-C to allow tasks revocation when Celery is used",
"if",
"OQ_DISTRIBUTE",
".",
"startswith",
"(",
"'celery'",
")",
":",
"signal",
".",
"signal",
"(",
"signal",
".",
"SIGINT",
",... | When a SIGTERM is received, raise the MasterKilled
exception with an appropriate error message.
:param int signum: the number of the received signal
:param _stack: the current frame object, ignored | [
"When",
"a",
"SIGTERM",
"is",
"received",
"raise",
"the",
"MasterKilled",
"exception",
"with",
"an",
"appropriate",
"error",
"message",
"."
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/engine/engine.py#L186-L212 |
gem/oq-engine | openquake/engine/engine.py | job_from_file | def job_from_file(job_ini, job_id, username, **kw):
"""
Create a full job profile from a job config file.
:param job_ini:
Path to a job.ini file
:param job_id:
ID of the created job
:param username:
The user who will own this job profile and all results
:param kw:
... | python | def job_from_file(job_ini, job_id, username, **kw):
hc_id = kw.get('hazard_calculation_id')
try:
oq = readinput.get_oqparam(job_ini, hc_id=hc_id)
except Exception:
logs.dbcmd('finish', job_id, 'failed')
raise
if 'calculation_mode' in kw:
oq.calculation_mode = kw.pop(... | [
"def",
"job_from_file",
"(",
"job_ini",
",",
"job_id",
",",
"username",
",",
"*",
"*",
"kw",
")",
":",
"hc_id",
"=",
"kw",
".",
"get",
"(",
"'hazard_calculation_id'",
")",
"try",
":",
"oq",
"=",
"readinput",
".",
"get_oqparam",
"(",
"job_ini",
",",
"hc... | Create a full job profile from a job config file.
:param job_ini:
Path to a job.ini file
:param job_id:
ID of the created job
:param username:
The user who will own this job profile and all results
:param kw:
Extra parameters including `calculation_mode` and `exposure_f... | [
"Create",
"a",
"full",
"job",
"profile",
"from",
"a",
"job",
"config",
"file",
"."
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/engine/engine.py#L230-L266 |
gem/oq-engine | openquake/engine/engine.py | poll_queue | def poll_queue(job_id, pid, poll_time):
"""
Check the queue of executing/submitted jobs and exit when there is
a free slot.
"""
if config.distribution.serialize_jobs:
first_time = True
while True:
jobs = logs.dbcmd(GET_JOBS)
failed = [job.id for job in jobs if... | python | def poll_queue(job_id, pid, poll_time):
if config.distribution.serialize_jobs:
first_time = True
while True:
jobs = logs.dbcmd(GET_JOBS)
failed = [job.id for job in jobs if not psutil.pid_exists(job.pid)]
if failed:
logs.dbcmd("UPDATE job SET ... | [
"def",
"poll_queue",
"(",
"job_id",
",",
"pid",
",",
"poll_time",
")",
":",
"if",
"config",
".",
"distribution",
".",
"serialize_jobs",
":",
"first_time",
"=",
"True",
"while",
"True",
":",
"jobs",
"=",
"logs",
".",
"dbcmd",
"(",
"GET_JOBS",
")",
"failed... | Check the queue of executing/submitted jobs and exit when there is
a free slot. | [
"Check",
"the",
"queue",
"of",
"executing",
"/",
"submitted",
"jobs",
"and",
"exit",
"when",
"there",
"is",
"a",
"free",
"slot",
"."
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/engine/engine.py#L269-L291 |
gem/oq-engine | openquake/engine/engine.py | run_calc | def run_calc(job_id, oqparam, exports, hazard_calculation_id=None, **kw):
"""
Run a calculation.
:param job_id:
ID of the current job
:param oqparam:
:class:`openquake.commonlib.oqvalidation.OqParam` instance
:param exports:
A comma-separated string of export types.
"""
... | python | def run_calc(job_id, oqparam, exports, hazard_calculation_id=None, **kw):
setproctitle('oq-job-%d' % job_id)
calc = base.calculators(oqparam, calc_id=job_id)
logging.info('%s running %s [--hc=%s]',
getpass.getuser(),
calc.oqparam.inputs['job_ini'],
cal... | [
"def",
"run_calc",
"(",
"job_id",
",",
"oqparam",
",",
"exports",
",",
"hazard_calculation_id",
"=",
"None",
",",
"*",
"*",
"kw",
")",
":",
"setproctitle",
"(",
"'oq-job-%d'",
"%",
"job_id",
")",
"calc",
"=",
"base",
".",
"calculators",
"(",
"oqparam",
"... | Run a calculation.
:param job_id:
ID of the current job
:param oqparam:
:class:`openquake.commonlib.oqvalidation.OqParam` instance
:param exports:
A comma-separated string of export types. | [
"Run",
"a",
"calculation",
"."
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/engine/engine.py#L294-L373 |
gem/oq-engine | openquake/engine/engine.py | version_triple | def version_triple(tag):
"""
returns: a triple of integers from a version tag
"""
groups = re.match(r'v?(\d+)\.(\d+)\.(\d+)', tag).groups()
return tuple(int(n) for n in groups) | python | def version_triple(tag):
groups = re.match(r'v?(\d+)\.(\d+)\.(\d+)', tag).groups()
return tuple(int(n) for n in groups) | [
"def",
"version_triple",
"(",
"tag",
")",
":",
"groups",
"=",
"re",
".",
"match",
"(",
"r'v?(\\d+)\\.(\\d+)\\.(\\d+)'",
",",
"tag",
")",
".",
"groups",
"(",
")",
"return",
"tuple",
"(",
"int",
"(",
"n",
")",
"for",
"n",
"in",
"groups",
")"
] | returns: a triple of integers from a version tag | [
"returns",
":",
"a",
"triple",
"of",
"integers",
"from",
"a",
"version",
"tag"
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/engine/engine.py#L376-L381 |
gem/oq-engine | openquake/engine/engine.py | check_obsolete_version | def check_obsolete_version(calculation_mode='WebUI'):
"""
Check if there is a newer version of the engine.
:param calculation_mode:
- the calculation mode when called from the engine
- an empty string when called from the WebUI
:returns:
- a message if the running version of t... | python | def check_obsolete_version(calculation_mode='WebUI'):
if os.environ.get('JENKINS_URL') or os.environ.get('TRAVIS'):
return
headers = {'User-Agent': 'OpenQuake Engine %s;%s;%s;%s' %
(__version__, calculation_mode, platform.platform(),
config.distribution.oq_d... | [
"def",
"check_obsolete_version",
"(",
"calculation_mode",
"=",
"'WebUI'",
")",
":",
"if",
"os",
".",
"environ",
".",
"get",
"(",
"'JENKINS_URL'",
")",
"or",
"os",
".",
"environ",
".",
"get",
"(",
"'TRAVIS'",
")",
":",
"# avoid flooding our API server with reques... | Check if there is a newer version of the engine.
:param calculation_mode:
- the calculation mode when called from the engine
- an empty string when called from the WebUI
:returns:
- a message if the running version of the engine is obsolete
- the empty string if the engine is ... | [
"Check",
"if",
"there",
"is",
"a",
"newer",
"version",
"of",
"the",
"engine",
"."
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/engine/engine.py#L384-L416 |
gem/oq-engine | openquake/baselib/python3compat.py | encode | def encode(val):
"""
Encode a string assuming the encoding is UTF-8.
:param: a unicode or bytes object
:returns: bytes
"""
if isinstance(val, (list, tuple)): # encode a list or tuple of strings
return [encode(v) for v in val]
elif isinstance(val, str):
return val.encode('ut... | python | def encode(val):
if isinstance(val, (list, tuple)):
return [encode(v) for v in val]
elif isinstance(val, str):
return val.encode('utf-8')
else:
return val | [
"def",
"encode",
"(",
"val",
")",
":",
"if",
"isinstance",
"(",
"val",
",",
"(",
"list",
",",
"tuple",
")",
")",
":",
"# encode a list or tuple of strings",
"return",
"[",
"encode",
"(",
"v",
")",
"for",
"v",
"in",
"val",
"]",
"elif",
"isinstance",
"("... | Encode a string assuming the encoding is UTF-8.
:param: a unicode or bytes object
:returns: bytes | [
"Encode",
"a",
"string",
"assuming",
"the",
"encoding",
"is",
"UTF",
"-",
"8",
"."
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/baselib/python3compat.py#L28-L41 |
gem/oq-engine | openquake/baselib/python3compat.py | raise_ | def raise_(tp, value=None, tb=None):
"""
A function that matches the Python 2.x ``raise`` statement. This
allows re-raising exceptions with the cls value and traceback on
Python 2 and 3.
"""
if value is not None and isinstance(tp, Exception):
raise TypeError("instance exception may not h... | python | def raise_(tp, value=None, tb=None):
if value is not None and isinstance(tp, Exception):
raise TypeError("instance exception may not have a separate value")
if value is not None:
exc = tp(value)
else:
exc = tp
if exc.__traceback__ is not tb:
raise exc.with_traceback(... | [
"def",
"raise_",
"(",
"tp",
",",
"value",
"=",
"None",
",",
"tb",
"=",
"None",
")",
":",
"if",
"value",
"is",
"not",
"None",
"and",
"isinstance",
"(",
"tp",
",",
"Exception",
")",
":",
"raise",
"TypeError",
"(",
"\"instance exception may not have a separat... | A function that matches the Python 2.x ``raise`` statement. This
allows re-raising exceptions with the cls value and traceback on
Python 2 and 3. | [
"A",
"function",
"that",
"matches",
"the",
"Python",
"2",
".",
"x",
"raise",
"statement",
".",
"This",
"allows",
"re",
"-",
"raising",
"exceptions",
"with",
"the",
"cls",
"value",
"and",
"traceback",
"on",
"Python",
"2",
"and",
"3",
"."
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/baselib/python3compat.py#L70-L84 |
gem/oq-engine | openquake/commands/dbserver.py | dbserver | def dbserver(cmd, dbhostport=None,
dbpath=os.path.expanduser(config.dbserver.file)):
"""
start/stop/restart the database server, or return its status
"""
if config.dbserver.multi_user and getpass.getuser() != 'openquake':
sys.exit('oq dbserver only works in single user mode')
s... | python | def dbserver(cmd, dbhostport=None,
dbpath=os.path.expanduser(config.dbserver.file)):
if config.dbserver.multi_user and getpass.getuser() != 'openquake':
sys.exit('oq dbserver only works in single user mode')
status = dbs.get_status()
if cmd == 'status':
print('dbserver ' +... | [
"def",
"dbserver",
"(",
"cmd",
",",
"dbhostport",
"=",
"None",
",",
"dbpath",
"=",
"os",
".",
"path",
".",
"expanduser",
"(",
"config",
".",
"dbserver",
".",
"file",
")",
")",
":",
"if",
"config",
".",
"dbserver",
".",
"multi_user",
"and",
"getpass",
... | start/stop/restart the database server, or return its status | [
"start",
"/",
"stop",
"/",
"restart",
"the",
"database",
"server",
"or",
"return",
"its",
"status"
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/commands/dbserver.py#L28-L54 |
gem/oq-engine | openquake/commands/plot_pyro.py | plot_pyro | def plot_pyro(calc_id=-1):
"""
Plot the pyroclastic cloud and the assets
"""
# NB: matplotlib is imported inside since it is a costly import
import matplotlib.pyplot as p
dstore = util.read(calc_id)
sitecol = dstore['sitecol']
asset_risk = dstore['asset_risk'].value
pyro, = numpy.whe... | python | def plot_pyro(calc_id=-1):
import matplotlib.pyplot as p
dstore = util.read(calc_id)
sitecol = dstore['sitecol']
asset_risk = dstore['asset_risk'].value
pyro, = numpy.where(dstore['multi_peril']['PYRO'] == 1)
lons = sitecol.lons[pyro]
lats = sitecol.lats[pyro]
p.scatter(lons, l... | [
"def",
"plot_pyro",
"(",
"calc_id",
"=",
"-",
"1",
")",
":",
"# NB: matplotlib is imported inside since it is a costly import",
"import",
"matplotlib",
".",
"pyplot",
"as",
"p",
"dstore",
"=",
"util",
".",
"read",
"(",
"calc_id",
")",
"sitecol",
"=",
"dstore",
"... | Plot the pyroclastic cloud and the assets | [
"Plot",
"the",
"pyroclastic",
"cloud",
"and",
"the",
"assets"
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/commands/plot_pyro.py#L24-L42 |
gem/oq-engine | openquake/hazardlib/geo/polygon.py | get_resampled_coordinates | def get_resampled_coordinates(lons, lats):
"""
Resample polygon line segments and return the coordinates of the new
vertices. This limits distortions when projecting a polygon onto a
spherical surface.
Parameters define longitudes and latitudes of a point collection in the
form of lists or nump... | python | def get_resampled_coordinates(lons, lats):
num_coords = len(lons)
assert num_coords == len(lats)
lons1 = numpy.array(lons)
lats1 = numpy.array(lats)
lons2 = numpy.concatenate((lons1[1:], lons1[:1]))
lats2 = numpy.concatenate((lats1[1:], lats1[:1]))
distances = geodetic.geodetic_distanc... | [
"def",
"get_resampled_coordinates",
"(",
"lons",
",",
"lats",
")",
":",
"num_coords",
"=",
"len",
"(",
"lons",
")",
"assert",
"num_coords",
"==",
"len",
"(",
"lats",
")",
"lons1",
"=",
"numpy",
".",
"array",
"(",
"lons",
")",
"lats1",
"=",
"numpy",
"."... | Resample polygon line segments and return the coordinates of the new
vertices. This limits distortions when projecting a polygon onto a
spherical surface.
Parameters define longitudes and latitudes of a point collection in the
form of lists or numpy arrays.
:return:
A tuple of two numpy ar... | [
"Resample",
"polygon",
"line",
"segments",
"and",
"return",
"the",
"coordinates",
"of",
"the",
"new",
"vertices",
".",
"This",
"limits",
"distortions",
"when",
"projecting",
"a",
"polygon",
"onto",
"a",
"spherical",
"surface",
"."
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/hazardlib/geo/polygon.py#L249-L291 |
gem/oq-engine | openquake/hazardlib/geo/surface/gridded.py | GriddedSurface.surface_nodes | def surface_nodes(self):
"""
:param points: a list of Point objects
:returns: a Node of kind 'griddedSurface'
"""
line = []
for point in self.mesh:
line.append(point.longitude)
line.append(point.latitude)
line.append(point.depth)
... | python | def surface_nodes(self):
line = []
for point in self.mesh:
line.append(point.longitude)
line.append(point.latitude)
line.append(point.depth)
return [Node('griddedSurface', nodes=[Node('gml:posList', {}, line)])] | [
"def",
"surface_nodes",
"(",
"self",
")",
":",
"line",
"=",
"[",
"]",
"for",
"point",
"in",
"self",
".",
"mesh",
":",
"line",
".",
"append",
"(",
"point",
".",
"longitude",
")",
"line",
".",
"append",
"(",
"point",
".",
"latitude",
")",
"line",
"."... | :param points: a list of Point objects
:returns: a Node of kind 'griddedSurface' | [
":",
"param",
"points",
":",
"a",
"list",
"of",
"Point",
"objects",
":",
"returns",
":",
"a",
"Node",
"of",
"kind",
"griddedSurface"
] | train | https://github.com/gem/oq-engine/blob/8294553a0b8aba33fd96437a35065d03547d0040/openquake/hazardlib/geo/surface/gridded.py#L46-L56 |
Subsets and Splits
No community queries yet
The top public SQL queries from the community will appear here once available.