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atmos-python/atmos | atmos/plot.py | SkewTAxes.semilogy | def semilogy(self, p, T, *args, **kwargs):
r'''Plot data.
Simple wrapper around plot so that pressure is the first (independent)
input. This is essentially a wrapper around `semilogy`.
Parameters
----------
p : array_like
pressure values
T : array_li... | python | def semilogy(self, p, T, *args, **kwargs):
r'''Plot data.
Simple wrapper around plot so that pressure is the first (independent)
input. This is essentially a wrapper around `semilogy`.
Parameters
----------
p : array_like
pressure values
T : array_li... | [
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Simple wrapper around plot so that pressure is the first (independent)
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pressure values
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atmos-python/atmos | atmos/plot.py | SkewTAxes.plot_barbs | def plot_barbs(self, p, u, v, xloc=1.0, x_clip_radius=0.08,
y_clip_radius=0.08, **kwargs):
r'''Plot wind barbs.
Adds wind barbs to the skew-T plot. This is a wrapper around the
`barbs` command that adds to appropriate transform to place the
barbs in a vertical line, l... | python | def plot_barbs(self, p, u, v, xloc=1.0, x_clip_radius=0.08,
y_clip_radius=0.08, **kwargs):
r'''Plot wind barbs.
Adds wind barbs to the skew-T plot. This is a wrapper around the
`barbs` command that adds to appropriate transform to place the
barbs in a vertical line, l... | [
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Adds wind barbs to the skew-T plot. This is a wrapper around the
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pressure v... | [
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atmos-python/atmos | atmos/plot.py | SkewTAxes.plot_dry_adiabats | def plot_dry_adiabats(self, p=None, theta=None, **kwargs):
r'''Plot dry adiabats.
Adds dry adiabats (lines of constant potential temperature) to the
plot. The default style of these lines is dashed red lines with an
alpha value of 0.5. These can be overridden using keyword arguments.
... | python | def plot_dry_adiabats(self, p=None, theta=None, **kwargs):
r'''Plot dry adiabats.
Adds dry adiabats (lines of constant potential temperature) to the
plot. The default style of these lines is dashed red lines with an
alpha value of 0.5. These can be overridden using keyword arguments.
... | [
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Adds dry adiabats (lines of constant potential temperature) to the
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atmos-python/atmos | atmos/plot.py | SkewTAxes.plot_mixing_lines | def plot_mixing_lines(self, p=None, rv=None, **kwargs):
r'''Plot lines of constant mixing ratio.
Adds lines of constant mixing ratio (isohumes) to the
plot. The default style of these lines is dashed green lines with an
alpha value of 0.8. These can be overridden using keyword arguments... | python | def plot_mixing_lines(self, p=None, rv=None, **kwargs):
r'''Plot lines of constant mixing ratio.
Adds lines of constant mixing ratio (isohumes) to the
plot. The default style of these lines is dashed green lines with an
alpha value of 0.8. These can be overridden using keyword arguments... | [
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Adds lines of constant mixing ratio (isohumes) to the
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atmos-python/atmos | atmos/solve.py | get_calculatable_quantities | def get_calculatable_quantities(inputs, methods):
'''
Given an interable of input quantity names and a methods dictionary,
returns a list of output quantities that can be calculated.
'''
output_quantities = []
updated = True
while updated:
updated = False
for output in method... | python | def get_calculatable_quantities(inputs, methods):
'''
Given an interable of input quantity names and a methods dictionary,
returns a list of output quantities that can be calculated.
'''
output_quantities = []
updated = True
while updated:
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atmos-python/atmos | atmos/solve.py | _get_methods_that_calculate_outputs | def _get_methods_that_calculate_outputs(inputs, outputs, methods):
'''
Given iterables of input variable names, output variable names,
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atmos-python/atmos | atmos/solve.py | _get_calculatable_methods_dict | def _get_calculatable_methods_dict(inputs, methods):
'''
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atmos-python/atmos | atmos/solve.py | _get_module_methods | def _get_module_methods(module):
'''
Returns a methods list corresponding to the equations in the given
module. Each entry is a dictionary with keys 'output', 'args', and
'func' corresponding to the output, arguments, and function of the
method. The entries may optionally include 'assumptions' and
... | python | def _get_module_methods(module):
'''
Returns a methods list corresponding to the equations in the given
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atmos-python/atmos | atmos/solve.py | _check_scalar | def _check_scalar(value):
'''If value is a 0-dimensional array, returns the contents of value.
Otherwise, returns value.
'''
if isinstance(value, np.ndarray):
if value.ndim == 0:
# We have a 0-dimensional array
return value[None][0]
return value | python | def _check_scalar(value):
'''If value is a 0-dimensional array, returns the contents of value.
Otherwise, returns value.
'''
if isinstance(value, np.ndarray):
if value.ndim == 0:
# We have a 0-dimensional array
return value[None][0]
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atmos-python/atmos | atmos/solve.py | calculate | def calculate(*args, **kwargs):
'''
Calculates and returns a requested quantity from quantities passed in as
keyword arguments.
Parameters
----------
\*args : string
Names of quantities to be calculated.
assumptions : tuple, optional
Strings specifying which assumptions to enable. Overrides the default
... | python | def calculate(*args, **kwargs):
'''
Calculates and returns a requested quantity from quantities passed in as
keyword arguments.
Parameters
----------
\*args : string
Names of quantities to be calculated.
assumptions : tuple, optional
Strings specifying which assumptions to enable. Overrides the default
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cls1991/ng | ng.py | ip | def ip():
"""Show ip address."""
ok, err = _hack_ip()
if not ok:
click.secho(click.style(err, fg='red'))
sys.exit(1)
click.secho(click.style(err, fg='green')) | python | def ip():
"""Show ip address."""
ok, err = _hack_ip()
if not ok:
click.secho(click.style(err, fg='red'))
sys.exit(1)
click.secho(click.style(err, fg='green')) | [
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cls1991/ng | ng.py | wp | def wp(ssid):
"""Show wifi password."""
if not ssid:
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if not ok:
click.secho(click.style(err, fg='red'))
sys.exit(1)
ssid = err
ok, err = _hack_wifi_password(ssid)
if not ok:
click.secho(click.style(err, fg='red'))
... | python | def wp(ssid):
"""Show wifi password."""
if not ssid:
ok, err = _detect_wifi_ssid()
if not ok:
click.secho(click.style(err, fg='red'))
sys.exit(1)
ssid = err
ok, err = _hack_wifi_password(ssid)
if not ok:
click.secho(click.style(err, fg='red'))
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bharadwajyarlagadda/bingmaps | bingmaps/apiservices/elevations.py | ElevationsApi.build_url | def build_url(self):
"""Builds the URL for elevations API services based on the data given
by the user.
Returns:
url (str): URL for the elevations API services
"""
url = '{protocol}/{url}/{rest}/{version}/{restapi}/{rscpath}/' \
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"""Builds the URL for elevations API services based on the data given
by the user.
Returns:
url (str): URL for the elevations API services
"""
url = '{protocol}/{url}/{rest}/{version}/{restapi}/{rscpath}/' \
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bharadwajyarlagadda/bingmaps | bingmaps/apiservices/elevations.py | ElevationsApi.zoomlevel | def zoomlevel(self):
"""Retrieves zoomlevel from the output response
Returns:
zoomlevel (namedtuple): A namedtuple of zoomlevel from the output
response
"""
resources = self.get_resource()
zoomlevel = namedtuple('zoomlevel', 'zoomLevel')
try:
... | python | def zoomlevel(self):
"""Retrieves zoomlevel from the output response
Returns:
zoomlevel (namedtuple): A namedtuple of zoomlevel from the output
response
"""
resources = self.get_resource()
zoomlevel = namedtuple('zoomlevel', 'zoomLevel')
try:
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bharadwajyarlagadda/bingmaps | bingmaps/apiservices/elevations.py | ElevationsApi.to_json_file | def to_json_file(self, path, file_name=None):
"""Writes output to a JSON file with the given file name"""
if bool(path) and os.path.isdir(path):
self.write_to_json(path, file_name)
else:
self.write_to_json(os.getcwd(), file_name) | python | def to_json_file(self, path, file_name=None):
"""Writes output to a JSON file with the given file name"""
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cqlengine/cqlengine | cqlengine/management.py | update_compaction | def update_compaction(model):
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:rtype: bool
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Records the hosts and connects to one of them
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**kwargs):
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Records the hosts and connects to one of them
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cqlengine/cqlengine | cqlengine/columns.py | Column.validate | def validate(self, value):
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"""
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"""
Returns a cleaned and validated value. Raises a ValidationError
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cqlengine/cqlengine | cqlengine/columns.py | TimeUUID.from_datetime | def from_datetime(self, dt):
"""
generates a UUID for a given datetime
:param dt: datetime
:type dt: datetime
:return:
"""
global _last_timestamp
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offset = epoch.tzinfo.utcoffset(epoch).total_seconds(... | python | def from_datetime(self, dt):
"""
generates a UUID for a given datetime
:param dt: datetime
:type dt: datetime
:return:
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cqlengine/cqlengine | cqlengine/models.py | BaseModel._can_update | def _can_update(self):
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"""
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"""
Called by the save function to check if this should be
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cqlengine/cqlengine | cqlengine/models.py | BaseModel.delete | def delete(self):
""" Deletes this instance """
self.__dmlquery__(self.__class__, self,
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consistency=self.__consistency__,
timeout=self._timeout).delete() | python | def delete(self):
""" Deletes this instance """
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cqlengine/cqlengine | cqlengine/query.py | AbstractQuerySet.filter | def filter(self, *args, **kwargs):
"""
Adds WHERE arguments to the queryset, returning a new queryset
#TODO: show examples
:rtype: AbstractQuerySet
"""
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"""
Adds WHERE arguments to the queryset, returning a new queryset
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cqlengine/cqlengine | cqlengine/query.py | AbstractQuerySet.order_by | def order_by(self, *colnames):
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clone = copy.deepcopy(self)
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"""
orders the result set.
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cqlengine/cqlengine | cqlengine/query.py | AbstractQuerySet.count | def count(self):
""" Returns the number of rows matched by this query """
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""" Returns the number of rows matched by this query """
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cqlengine/cqlengine | cqlengine/query.py | AbstractQuerySet.limit | def limit(self, v):
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Sets the limit on the number of results returned
CQL has a default limit of 10,000
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asweigart/pytweening | pytweening/__init__.py | easeInOutQuad | def easeInOutQuad(n):
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n (float): The time progress, starting at 0.0 and ending at 1.0.
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asweigart/pytweening | pytweening/__init__.py | easeInElastic | def easeInElastic(n, amplitude=1, period=0.3):
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asweigart/pytweening | pytweening/__init__.py | easeOutElastic | def easeOutElastic(n, amplitude=1, period=0.3):
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asweigart/pytweening | pytweening/__init__.py | easeInOutElastic | def easeInOutElastic(n, amplitude=1, period=0.5):
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n (float): The time progress, starting at 0.0 and ending at 1.0.
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asweigart/pytweening | pytweening/__init__.py | easeInBack | def easeInBack(n, s=1.70158):
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asweigart/pytweening | pytweening/__init__.py | easeOutBack | def easeOutBack(n, s=1.70158):
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asweigart/pytweening | pytweening/__init__.py | easeInOutBack | def easeInOutBack(n, s=1.70158):
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n (float): The time progress, starting at 0.0 and ending at 1.0.
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asweigart/pytweening | pytweening/__init__.py | easeOutBounce | def easeOutBounce(n):
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n (float): The time progress, starting at 0.0 and ending at 1.0.
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nnseva/django-access | access/admin.py | AccessControlMixin.formfield_for_manytomany | def formfield_for_manytomany(self, db_field, request, **kwargs):
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Not all Admin subclasses use get_field_queryset here, so we will use it explicitly
'''
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Not all Admin subclasses use get_field_queryset here, so we will use it explicitly
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db = kwargs.get('using')
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nnseva/django-access | access/admin.py | AccessControlMixin.delete_selected | def delete_selected(self, request, queryset):
'''
The real delete function always evaluated either from the action, or from the instance delete link
'''
opts = self.model._meta
app_label = opts.app_label
# Populate deletable_objects, a data structure of all related objec... | python | def delete_selected(self, request, queryset):
'''
The real delete function always evaluated either from the action, or from the instance delete link
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nnseva/django-access | access/admin.py | AccessControlMixin.get_deleted_objects | def get_deleted_objects(self, request, queryset):
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Find all objects related to instances of ``queryset`` that should also be deleted.
Returns
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nnseva/django-access | access/managers.py | AccessManager.register_plugins | def register_plugins(cls, plugins):
'''
Reguster plugins. The plugins parameter should be dict mapping model to plugin.
Just calls a register_plugin for every such a pair.
'''
for model in plugins:
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'''
Reguster plugins. The plugins parameter should be dict mapping model to plugin.
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nnseva/django-access | access/managers.py | AccessManager.register_plugin | def register_plugin(cls, model, plugin):
'''
Reguster a plugin for the model.
The only one plugin can be registered. If you want to combine plugins, use CompoundPlugin.
'''
logger.info("Plugin registered for %s: %s", model, plugin)
cls.plugins[model] = plugin | python | def register_plugin(cls, model, plugin):
'''
Reguster a plugin for the model.
The only one plugin can be registered. If you want to combine plugins, use CompoundPlugin.
'''
logger.info("Plugin registered for %s: %s", model, plugin)
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nnseva/django-access | access/managers.py | AccessManager.get_default_plugin | def get_default_plugin(cls):
'''
Return a default plugin.
'''
from importlib import import_module
from django.conf import settings
default_plugin = getattr(settings, 'ACCESS_DEFAULT_PLUGIN', "access.plugins.DjangoAccessPlugin")
if default_plugin not in cls.default... | python | def get_default_plugin(cls):
'''
Return a default plugin.
'''
from importlib import import_module
from django.conf import settings
default_plugin = getattr(settings, 'ACCESS_DEFAULT_PLUGIN', "access.plugins.DjangoAccessPlugin")
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nnseva/django-access | access/managers.py | AccessManager.plugin_for | def plugin_for(cls, model):
'''
Find and return a plugin for this model. Uses inheritance to find a model where the plugin is registered.
'''
logger.debug("Getting a plugin for: %s", model)
if not issubclass(model, Model):
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'''
Find and return a plugin for this model. Uses inheritance to find a model where the plugin is registered.
'''
logger.debug("Getting a plugin for: %s", model)
if not issubclass(model, Model):
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nnseva/django-access | access/managers.py | AccessManager.visible | def visible(self, request):
'''
Checks the both, check_visible and apply_visible, against the owned model and it's instance set
'''
return self.apply_visible(self.get_queryset(), request) if self.check_visible(self.model, request) is not False else self.get_queryset().none() | python | def visible(self, request):
'''
Checks the both, check_visible and apply_visible, against the owned model and it's instance set
'''
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nnseva/django-access | access/managers.py | AccessManager.deleteable | def deleteable(self, request):
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'''
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krischer/django-plugins | djangoplugins/utils.py | get_plugin_from_string | def get_plugin_from_string(plugin_name):
"""
Returns plugin or plugin point class from given ``plugin_name`` string.
Example of ``plugin_name``::
'my_app.MyPlugin'
"""
modulename, classname = plugin_name.rsplit('.', 1)
module = import_module(modulename)
return getattr(module, clas... | python | def get_plugin_from_string(plugin_name):
"""
Returns plugin or plugin point class from given ``plugin_name`` string.
Example of ``plugin_name``::
'my_app.MyPlugin'
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modulename, classname = plugin_name.rsplit('.', 1)
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RealTimeWeb/datasets | builder/languages/detect_distribution.py | make_pdf | def make_pdf(dist, params, size=10000):
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scale = params[-1]
# Get sane start and end points of distribution
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arg = params[:-2]
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RealTimeWeb/datasets | preprocess/earthquakes/earthquakes.py | _load_from_string | def _load_from_string(data):
'''Loads the cache from the string'''
global _CACHE
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data = json.loads(data.decode("utf-8"))
else:
data = json.loads(data)
_CACHE = _recursively_convert_unicode_to_str(data)['data'] | python | def _load_from_string(data):
'''Loads the cache from the string'''
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krischer/django-plugins | djangoplugins/point.py | PluginPoint.get_model | def get_model(cls, name=None, status=ENABLED):
"""
Returns model instance of plugin point or plugin, depending from which
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Example::
plugin_model_instance = MyPlugin.get_model()
plugin_model_instance = MyPluginPoint.get_model('plugin-... | python | def get_model(cls, name=None, status=ENABLED):
"""
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krischer/django-plugins | djangoplugins/point.py | PluginPoint.get_point_model | def get_point_model(cls):
"""
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"""
if is_plugin_point(cls):
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else:
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"""
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krischer/django-plugins | djangoplugins/point.py | PluginPoint.get_plugins | def get_plugins(cls):
"""
Returns all plugin instances of plugin point, passing all args and
kwargs to plugin constructor.
"""
# Django >= 1.9 changed something with the migration logic causing
# plugins to be executed before the corresponding database tables
# ex... | python | def get_plugins(cls):
"""
Returns all plugin instances of plugin point, passing all args and
kwargs to plugin constructor.
"""
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# plugins to be executed before the corresponding database tables
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krischer/django-plugins | djangoplugins/point.py | PluginPoint.get_plugins_qs | def get_plugins_qs(cls):
"""
Returns query set of all plugins belonging to plugin point.
Example::
for plugin_instance in MyPluginPoint.get_plugins_qs():
print(plugin_instance.get_plugin().name)
"""
if is_plugin_point(cls):
point_pythonp... | python | def get_plugins_qs(cls):
"""
Returns query set of all plugins belonging to plugin point.
Example::
for plugin_instance in MyPluginPoint.get_plugins_qs():
print(plugin_instance.get_plugin().name)
"""
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RealTimeWeb/datasets | preprocess/classics/process_rdf.py | safeunicode | def safeunicode(arg, *args, **kwargs):
"""Coerce argument to unicode, if it's not already."""
return arg if isinstance(arg, unicode) else unicode(arg, *args, **kwargs) | python | def safeunicode(arg, *args, **kwargs):
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RealTimeWeb/datasets | datasets/python/energy/energy.py | get_reports | def get_reports():
"""
Returns energy data from 1960 to 2014 across various factors.
"""
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# If there was a Test version of this method, it would go here. But alas.
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else:
rows = _Constants._DATABASE.execute("SELECT data FROM energy".format(
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"""
Returns energy data from 1960 to 2014 across various factors.
"""
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krischer/django-plugins | djangoplugins/management/commands/syncplugins.py | SyncPlugins.available | def available(self, src, dst, model):
"""
Iterate over all registered plugins or plugin points and prepare to add
them to database.
"""
for name, point in six.iteritems(src):
inst = dst.pop(name, None)
if inst is None:
self.print_(1, "Regis... | python | def available(self, src, dst, model):
"""
Iterate over all registered plugins or plugin points and prepare to add
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"""
for name, point in six.iteritems(src):
inst = dst.pop(name, None)
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krischer/django-plugins | djangoplugins/management/commands/syncplugins.py | SyncPlugins.missing | def missing(self, dst):
"""
Mark all missing plugins, that exists in database, but are not
registered.
"""
for inst in six.itervalues(dst):
if inst.status != REMOVED:
inst.status = REMOVED
inst.save() | python | def missing(self, dst):
"""
Mark all missing plugins, that exists in database, but are not
registered.
"""
for inst in six.itervalues(dst):
if inst.status != REMOVED:
inst.status = REMOVED
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krischer/django-plugins | djangoplugins/management/commands/syncplugins.py | SyncPlugins.all | def all(self):
"""
Synchronize all registered plugins and plugin points to database.
"""
# Django >= 1.9 changed something with the migration logic causing
# plugins to be executed before the corresponding database tables
# exist. This method will only return something if... | python | def all(self):
"""
Synchronize all registered plugins and plugin points to database.
"""
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RealTimeWeb/datasets | datasets/python/weather/weather.py | get_weather | def get_weather(test=False):
"""
Returns weather reports from the dataset.
"""
if _Constants._TEST or test:
rows = _Constants._DATABASE.execute("SELECT data FROM weather LIMIT {hardware}".format(
hardware=_Constants._HARDWARE))
data = [r[0] for r in rows]
data = ... | python | def get_weather(test=False):
"""
Returns weather reports from the dataset.
"""
if _Constants._TEST or test:
rows = _Constants._DATABASE.execute("SELECT data FROM weather LIMIT {hardware}".format(
hardware=_Constants._HARDWARE))
data = [r[0] for r in rows]
data = ... | [
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joealcorn/xbox | xbox/client.py | Client._get | def _get(self, url, **kw):
'''
Makes a GET request, setting Authorization
header by default
'''
headers = kw.pop('headers', {})
headers.setdefault('Content-Type', 'application/json')
headers.setdefault('Accept', 'application/json')
headers.setdefault('Auth... | python | def _get(self, url, **kw):
'''
Makes a GET request, setting Authorization
header by default
'''
headers = kw.pop('headers', {})
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joealcorn/xbox | xbox/client.py | Client._post | def _post(self, url, **kw):
'''
Makes a POST request, setting Authorization
header by default
'''
headers = kw.pop('headers', {})
headers.setdefault('Authorization', self.AUTHORIZATION_HEADER)
kw['headers'] = headers
resp = self.session.post(url, **kw)
... | python | def _post(self, url, **kw):
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Makes a POST request, setting Authorization
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headers.setdefault('Authorization', self.AUTHORIZATION_HEADER)
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joealcorn/xbox | xbox/client.py | Client._post_json | def _post_json(self, url, data, **kw):
'''
Makes a POST request, setting Authorization
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'''
data = json.dumps(data)
headers = kw.pop('headers', {})
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Makes a POST request, setting Authorization
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joealcorn/xbox | xbox/client.py | Client.authenticate | def authenticate(self, login=None, password=None):
'''
Authenticated this client instance.
``login`` and ``password`` default to the environment
variables ``MS_LOGIN`` and ``MS_PASSWD`` respectively.
:param login: Email address associated with a microsoft account
:para... | python | def authenticate(self, login=None, password=None):
'''
Authenticated this client instance.
``login`` and ``password`` default to the environment
variables ``MS_LOGIN`` and ``MS_PASSWD`` respectively.
:param login: Email address associated with a microsoft account
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joealcorn/xbox | xbox/resource.py | GamerProfile.from_xuid | def from_xuid(cls, xuid):
'''
Instantiates an instance of ``GamerProfile`` from
an xuid
:param xuid: Xuid to look up
:raises: :class:`~xbox.exceptions.GamertagNotFound`
:returns: :class:`~xbox.GamerProfile` instance
'''
url = 'https://profile.xboxlive.... | python | def from_xuid(cls, xuid):
'''
Instantiates an instance of ``GamerProfile`` from
an xuid
:param xuid: Xuid to look up
:raises: :class:`~xbox.exceptions.GamertagNotFound`
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joealcorn/xbox | xbox/resource.py | GamerProfile.from_gamertag | def from_gamertag(cls, gamertag):
'''
Instantiates an instance of ``GamerProfile`` from
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:param gamertag: Gamertag to look up
:raises: :class:`~xbox.exceptions.GamertagNotFound`
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url = 'https:/... | python | def from_gamertag(cls, gamertag):
'''
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joealcorn/xbox | xbox/resource.py | Clip.get | def get(cls, xuid, scid, clip_id):
'''
Gets a specific game clip
:param xuid: xuid of an xbox live user
:param scid: scid of a clip
:param clip_id: id of a clip
'''
url = (
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'''
Gets a specific game clip
:param xuid: xuid of an xbox live user
:param scid: scid of a clip
:param clip_id: id of a clip
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joealcorn/xbox | xbox/resource.py | Clip.saved_from_user | def saved_from_user(cls, user, include_pending=False):
'''
Gets all clips 'saved' by a user.
:param user: :class:`~xbox.GamerProfile` instance
:param bool include_pending: whether to ignore clips that are not
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joealcorn/xbox | xbox/vendor/requests/models.py | PreparedRequest.prepare_url | def prepare_url(self, url, params):
"""Prepares the given HTTP URL."""
url = to_native_string(url)
# Don't do any URL preparation for non-HTTP schemes like `mailto`,
# `data` etc to work around exceptions from `url_parse`, which
# handles RFC 3986 only.
if ':' in url and... | python | def prepare_url(self, url, params):
"""Prepares the given HTTP URL."""
url = to_native_string(url)
# Don't do any URL preparation for non-HTTP schemes like `mailto`,
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joealcorn/xbox | xbox/vendor/requests/packages/chardet/chardetect.py | description_of | def description_of(file, name='stdin'):
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u = UniversalDetector()
for line in file:
u.feed(line)
u.close()
result = u.result
if result['encoding']:
return '%s: %s with confidence %s' % (name,
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"""Return a string describing the probable encoding of a file."""
u = UniversalDetector()
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u.close()
result = u.result
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JakeWharton/py-videodownloader | videodownloader/providers/__init__.py | Provider.run | def run(self):
'''
Download the video.
'''
#Callback
self._debug('Provider', 'run', 'Running pre-download callback.')
self._pre_download()
url = None
out = None
success = False
try:
url = Provider._download(self.get_download_u... | python | def run(self):
'''
Download the video.
'''
#Callback
self._debug('Provider', 'run', 'Running pre-download callback.')
self._pre_download()
url = None
out = None
success = False
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vaidik/commentjson | commentjson/commentjson.py | dumps | def dumps(obj, **kwargs):
''' Serialize `obj` to a JSON formatted `str`. Accepts the same arguments
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:param obj: a JSON serializable Python object.
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dennisv/django-storage-swift | swift/storage.py | prepend_name_prefix | def prepend_name_prefix(func):
"""
Decorator that wraps instance methods to prepend the instance's filename
prefix to the beginning of the referenced filename. Must only be used on
instance methods where the first parameter after `self` is `name` or a
comparable parameter of a different name.
""... | python | def prepend_name_prefix(func):
"""
Decorator that wraps instance methods to prepend the instance's filename
prefix to the beginning of the referenced filename. Must only be used on
instance methods where the first parameter after `self` is `name` or a
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anthonyalmarza/chalk | chalk/logging.py | get_chalk | def get_chalk(level):
"""Gets the appropriate piece of chalk for the logging level
"""
if level >= logging.ERROR:
_chalk = chalk.red
elif level >= logging.WARNING:
_chalk = chalk.yellow
elif level >= logging.INFO:
_chalk = chalk.blue
elif level >= logging.DEBUG:
_... | python | def get_chalk(level):
"""Gets the appropriate piece of chalk for the logging level
"""
if level >= logging.ERROR:
_chalk = chalk.red
elif level >= logging.WARNING:
_chalk = chalk.yellow
elif level >= logging.INFO:
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anthonyalmarza/chalk | chalk/utils.py | to_str | def to_str(obj):
"""Attempts to convert given object to a string object
"""
if not isinstance(obj, str) and PY3 and isinstance(obj, bytes):
obj = obj.decode('utf-8')
return obj if isinstance(obj, string_types) else str(obj) | python | def to_str(obj):
"""Attempts to convert given object to a string object
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if not isinstance(obj, str) and PY3 and isinstance(obj, bytes):
obj = obj.decode('utf-8')
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anthonyalmarza/chalk | chalk/utils.py | Color.get_color | def get_color(self, value):
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of the Color object to the correct unicode value.
"""
if value in COLOR_SET:
value = COLOR_MAP[value]
else:
try:
value = int(value)
... | python | def get_color(self, value):
"""Helper method to validate and map values used in the instantiation of
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value = COLOR_MAP[value]
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icoxfog417/mlimages | mlimages/model.py | LabelFile.shuffle | def shuffle(self, overwrite=False):
"""
This method creates new shuffled file.
"""
if overwrite:
shuffled = self.path
else:
shuffled = FileAPI.add_ext_name(self.path, "_shuffled")
lines = open(self.path).readlines()
random.shuffle(lines)
... | python | def shuffle(self, overwrite=False):
"""
This method creates new shuffled file.
"""
if overwrite:
shuffled = self.path
else:
shuffled = FileAPI.add_ext_name(self.path, "_shuffled")
lines = open(self.path).readlines()
random.shuffle(lines)
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biocore-ntnu/epic | epic/run/run_epic.py | multiple_files_count_reads_in_windows | def multiple_files_count_reads_in_windows(bed_files, args):
# type: (Iterable[str], Namespace) -> OrderedDict[str, List[pd.DataFrame]]
"""Use count_reads on multiple files and store result in dict.
Untested since does the same thing as count reads."""
bed_windows = OrderedDict() # type: OrderedDict[st... | python | def multiple_files_count_reads_in_windows(bed_files, args):
# type: (Iterable[str], Namespace) -> OrderedDict[str, List[pd.DataFrame]]
"""Use count_reads on multiple files and store result in dict.
Untested since does the same thing as count reads."""
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biocore-ntnu/epic | epic/run/run_epic.py | _merge_files | def _merge_files(windows, nb_cpu):
# type: (Iterable[pd.DataFrame], int) -> pd.DataFrame
"""Merge lists of chromosome bin df chromosome-wise.
windows is an OrderedDict where the keys are files, the values are lists of
dfs, one per chromosome.
Returns a list of dataframes, one per chromosome, with ... | python | def _merge_files(windows, nb_cpu):
# type: (Iterable[pd.DataFrame], int) -> pd.DataFrame
"""Merge lists of chromosome bin df chromosome-wise.
windows is an OrderedDict where the keys are files, the values are lists of
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kvesteri/intervals | intervals/interval.py | py2round | def py2round(value):
"""Round values as in Python 2, for Python 3 compatibility.
All x.5 values are rounded away from zero.
In Python 3, this has changed to avoid bias: when x is even,
rounding is towards zero, when x is odd, rounding is away
from zero. Thus, in Python 3, round(2.5) results in 2,
... | python | def py2round(value):
"""Round values as in Python 2, for Python 3 compatibility.
All x.5 values are rounded away from zero.
In Python 3, this has changed to avoid bias: when x is even,
rounding is towards zero, when x is odd, rounding is away
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kvesteri/intervals | intervals/interval.py | canonicalize | def canonicalize(interval, lower_inc=True, upper_inc=False):
"""
Convert equivalent discrete intervals to different representations.
"""
if not interval.discrete:
raise TypeError('Only discrete ranges can be canonicalized')
if interval.empty:
return interval
lower, lower_inc = ... | python | def canonicalize(interval, lower_inc=True, upper_inc=False):
"""
Convert equivalent discrete intervals to different representations.
"""
if not interval.discrete:
raise TypeError('Only discrete ranges can be canonicalized')
if interval.empty:
return interval
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kvesteri/intervals | intervals/interval.py | AbstractInterval.glb | def glb(self, other):
"""
Return the greatest lower bound for given intervals.
:param other: AbstractInterval instance
"""
return self.__class__(
[
min(self.lower, other.lower),
min(self.upper, other.upper)
],
l... | python | def glb(self, other):
"""
Return the greatest lower bound for given intervals.
:param other: AbstractInterval instance
"""
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kvesteri/intervals | intervals/interval.py | AbstractInterval.lub | def lub(self, other):
"""
Return the least upper bound for given intervals.
:param other: AbstractInterval instance
"""
return self.__class__(
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max(self.lower, other.lower),
max(self.upper, other.upper),
],
low... | python | def lub(self, other):
"""
Return the least upper bound for given intervals.
:param other: AbstractInterval instance
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return self.__class__(
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biocore-ntnu/epic | epic/statistics/compute_values_needed_for_recurrence.py | compute_enriched_threshold | def compute_enriched_threshold(average_window_readcount):
# type: (float) -> int
"""
Computes the minimum number of tags required in window for an island to be enriched.
"""
current_threshold, survival_function = 0, 1
for current_threshold in count(start=0, step=1):
survival_function -=... | python | def compute_enriched_threshold(average_window_readcount):
# type: (float) -> int
"""
Computes the minimum number of tags required in window for an island to be enriched.
"""
current_threshold, survival_function = 0, 1
for current_threshold in count(start=0, step=1):
survival_function -=... | [
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biocore-ntnu/epic | epic/statistics/compute_poisson.py | _factln | def _factln(num):
# type: (int) -> float
"""
Computes logfactorial regularly for tractable numbers, uses Ramanujans approximation otherwise.
"""
if num < 20:
log_factorial = log(factorial(num))
else:
log_factorial = num * log(num) - num + log(num * (1 + 4 * num * (
1... | python | def _factln(num):
# type: (int) -> float
"""
Computes logfactorial regularly for tractable numbers, uses Ramanujans approximation otherwise.
"""
if num < 20:
log_factorial = log(factorial(num))
else:
log_factorial = num * log(num) - num + log(num * (1 + 4 * num * (
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biocore-ntnu/epic | epic/merge/merge_helpers.py | add_new_enriched_bins_matrixes | def add_new_enriched_bins_matrixes(region_files, dfs, bin_size):
"""Add enriched bins based on bed files.
There is no way to find the correspondence between region file and matrix
file, but it does not matter."""
dfs = _remove_epic_enriched(dfs)
names = ["Enriched_" + os.path.basename(r) for r i... | python | def add_new_enriched_bins_matrixes(region_files, dfs, bin_size):
"""Add enriched bins based on bed files.
There is no way to find the correspondence between region file and matrix
file, but it does not matter."""
dfs = _remove_epic_enriched(dfs)
names = ["Enriched_" + os.path.basename(r) for r i... | [
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biocore-ntnu/epic | epic/windows/count/merge_chromosome_dfs.py | merge_chromosome_dfs | def merge_chromosome_dfs(df_tuple):
# type: (Tuple[pd.DataFrame, pd.DataFrame]) -> pd.DataFrame
"""Merges data from the two strands into strand-agnostic counts."""
plus_df, minus_df = df_tuple
index_cols = "Chromosome Bin".split()
count_column = plus_df.columns[0]
if plus_df.empty:
ret... | python | def merge_chromosome_dfs(df_tuple):
# type: (Tuple[pd.DataFrame, pd.DataFrame]) -> pd.DataFrame
"""Merges data from the two strands into strand-agnostic counts."""
plus_df, minus_df = df_tuple
index_cols = "Chromosome Bin".split()
count_column = plus_df.columns[0]
if plus_df.empty:
ret... | [
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biocore-ntnu/epic | epic/bigwig/create_bigwigs.py | create_log2fc_bigwigs | def create_log2fc_bigwigs(matrix, outdir, args):
# type: (pd.DataFrame, str, Namespace) -> None
"""Create bigwigs from matrix."""
call("mkdir -p {}".format(outdir), shell=True)
genome_size_dict = args.chromosome_sizes
outpaths = []
for bed_file in matrix[args.treatment]:
outpath = join... | python | def create_log2fc_bigwigs(matrix, outdir, args):
# type: (pd.DataFrame, str, Namespace) -> None
"""Create bigwigs from matrix."""
call("mkdir -p {}".format(outdir), shell=True)
genome_size_dict = args.chromosome_sizes
outpaths = []
for bed_file in matrix[args.treatment]:
outpath = join... | [
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biocore-ntnu/epic | epic/statistics/add_to_island_expectations.py | add_to_island_expectations_dict | def add_to_island_expectations_dict(average_window_readcount,
current_max_scaled_score,
island_eligibility_threshold,
island_expectations, gap_contribution):
# type: ( float, int, float, Dict[int, float], flo... | python | def add_to_island_expectations_dict(average_window_readcount,
current_max_scaled_score,
island_eligibility_threshold,
island_expectations, gap_contribution):
# type: ( float, int, float, Dict[int, float], flo... | [
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biocore-ntnu/epic | epic/scripts/effective_genome_size.py | effective_genome_size | def effective_genome_size(fasta, read_length, nb_cores, tmpdir="/tmp"):
# type: (str, int, int, str) -> None
"""Compute effective genome size for genome."""
idx = Fasta(fasta)
genome_length = sum([len(c) for c in idx])
logging.info("Temporary directory: " + tmpdir)
logging.info("File analyzed... | python | def effective_genome_size(fasta, read_length, nb_cores, tmpdir="/tmp"):
# type: (str, int, int, str) -> None
"""Compute effective genome size for genome."""
idx = Fasta(fasta)
genome_length = sum([len(c) for c in idx])
logging.info("Temporary directory: " + tmpdir)
logging.info("File analyzed... | [
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biocore-ntnu/epic | epic/matrixes/matrixes.py | get_island_bins | def get_island_bins(df, window_size, genome, args):
# type: (pd.DataFrame, int, str, Namespace) -> Dict[str, Set[int]]
"""Finds the enriched bins in a df."""
# need these chromos because the df might not have islands in all chromos
chromosomes = natsorted(list(args.chromosome_sizes))
chromosome_is... | python | def get_island_bins(df, window_size, genome, args):
# type: (pd.DataFrame, int, str, Namespace) -> Dict[str, Set[int]]
"""Finds the enriched bins in a df."""
# need these chromos because the df might not have islands in all chromos
chromosomes = natsorted(list(args.chromosome_sizes))
chromosome_is... | [
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biocore-ntnu/epic | epic/config/genomes.py | create_genome_size_dict | def create_genome_size_dict(genome):
# type: (str) -> Dict[str,int]
"""Creates genome size dict from string containing data."""
size_file = get_genome_size_file(genome)
size_lines = open(size_file).readlines()
size_dict = {}
for line in size_lines:
genome, length = line.split()
... | python | def create_genome_size_dict(genome):
# type: (str) -> Dict[str,int]
"""Creates genome size dict from string containing data."""
size_file = get_genome_size_file(genome)
size_lines = open(size_file).readlines()
size_dict = {}
for line in size_lines:
genome, length = line.split()
... | [
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biocore-ntnu/epic | epic/statistics/compute_score_threshold.py | compute_score_threshold | def compute_score_threshold(average_window_readcount,
island_enriched_threshold,
gap_contribution, boundary_contribution,
genome_length_in_bins):
# type: (float, int, float, float, float) -> float
"""
What does island_expect... | python | def compute_score_threshold(average_window_readcount,
island_enriched_threshold,
gap_contribution, boundary_contribution,
genome_length_in_bins):
# type: (float, int, float, float, float) -> float
"""
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biocore-ntnu/epic | epic/utils/find_readlength.py | find_readlength | def find_readlength(args):
# type: (Namespace) -> int
"""Estimate length of reads based on 10000 first."""
try:
bed_file = args.treatment[0]
except AttributeError:
bed_file = args.infiles[0]
filereader = "cat "
if bed_file.endswith(".gz") and search("linux", platform, IGNORECAS... | python | def find_readlength(args):
# type: (Namespace) -> int
"""Estimate length of reads based on 10000 first."""
try:
bed_file = args.treatment[0]
except AttributeError:
bed_file = args.infiles[0]
filereader = "cat "
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biocore-ntnu/epic | epic/utils/find_readlength.py | get_closest_readlength | def get_closest_readlength(estimated_readlength):
# type: (int) -> int
"""Find the predefined readlength closest to the estimated readlength.
In the case of a tie, choose the shortest readlength."""
readlengths = [36, 50, 75, 100]
differences = [abs(r - estimated_readlength) for r in readlengths]
... | python | def get_closest_readlength(estimated_readlength):
# type: (int) -> int
"""Find the predefined readlength closest to the estimated readlength.
In the case of a tie, choose the shortest readlength."""
readlengths = [36, 50, 75, 100]
differences = [abs(r - estimated_readlength) for r in readlengths]
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