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ChristopherRabotin/bungiesearch
bungiesearch/managers.py
BungiesearchManager.custom_search
def custom_search(self, index, doc_type): ''' Performs a search on a custom elasticsearch index and mapping. Will not attempt to map result objects. ''' from bungiesearch import Bungiesearch return Bungiesearch(raw_results=True).index(index).doc_type(doc_type)
python
def custom_search(self, index, doc_type): ''' Performs a search on a custom elasticsearch index and mapping. Will not attempt to map result objects. ''' from bungiesearch import Bungiesearch return Bungiesearch(raw_results=True).index(index).doc_type(doc_type)
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ChristopherRabotin/bungiesearch
bungiesearch/managers.py
BungiesearchManager.contribute_to_class
def contribute_to_class(self, cls, name): ''' Sets up the signal processor. Since self.model is not available in the constructor, we perform this operation here. ''' super(BungiesearchManager, self).contribute_to_class(cls, name) from . import Bungiesearch from ....
python
def contribute_to_class(self, cls, name): ''' Sets up the signal processor. Since self.model is not available in the constructor, we perform this operation here. ''' super(BungiesearchManager, self).contribute_to_class(cls, name) from . import Bungiesearch from ....
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ChristopherRabotin/bungiesearch
bungiesearch/fields.py
django_field_to_index
def django_field_to_index(field, **attr): ''' Returns the index field type that would likely be associated with each Django type. ''' dj_type = field.get_internal_type() if dj_type in ('DateField', 'DateTimeField'): return DateField(**attr) elif dj_type in ('BooleanField', 'NullBoolean...
python
def django_field_to_index(field, **attr): ''' Returns the index field type that would likely be associated with each Django type. ''' dj_type = field.get_internal_type() if dj_type in ('DateField', 'DateTimeField'): return DateField(**attr) elif dj_type in ('BooleanField', 'NullBoolean...
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ChristopherRabotin/bungiesearch
bungiesearch/fields.py
AbstractField.value
def value(self, obj): ''' Computes the value of this field to update the index. :param obj: object instance, as a dictionary or as a model instance. ''' if self.template_name: t = loader.select_template([self.template_name]) return t.render(Context({'objec...
python
def value(self, obj): ''' Computes the value of this field to update the index. :param obj: object instance, as a dictionary or as a model instance. ''' if self.template_name: t = loader.select_template([self.template_name]) return t.render(Context({'objec...
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ponty/EasyProcess
easyprocess/unicodeutil.py
split_command
def split_command(cmd, posix=None): ''' - cmd is string list -> nothing to do - cmd is string -> split it using shlex :param cmd: string ('ls -l') or list of strings (['ls','-l']) :rtype: string list ''' if not isinstance(cmd, string_types): # cmd is string list pass e...
python
def split_command(cmd, posix=None): ''' - cmd is string list -> nothing to do - cmd is string -> split it using shlex :param cmd: string ('ls -l') or list of strings (['ls','-l']) :rtype: string list ''' if not isinstance(cmd, string_types): # cmd is string list pass e...
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ChristopherRabotin/bungiesearch
bungiesearch/indices.py
ModelIndex.get_mapping
def get_mapping(self, meta_fields=True): ''' Returns the mapping for the index as a dictionary. :param meta_fields: Also include elasticsearch meta fields in the dictionary. :return: a dictionary which can be used to generate the elasticsearch index mapping for this doctype. '''...
python
def get_mapping(self, meta_fields=True): ''' Returns the mapping for the index as a dictionary. :param meta_fields: Also include elasticsearch meta fields in the dictionary. :return: a dictionary which can be used to generate the elasticsearch index mapping for this doctype. '''...
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ChristopherRabotin/bungiesearch
bungiesearch/indices.py
ModelIndex.collect_analysis
def collect_analysis(self): ''' :return: a dictionary which is used to get the serialized analyzer definition from the analyzer class. ''' analysis = {} for field in self.fields.values(): for analyzer_name in ('analyzer', 'index_analyzer', 'search_analyzer'): ...
python
def collect_analysis(self): ''' :return: a dictionary which is used to get the serialized analyzer definition from the analyzer class. ''' analysis = {} for field in self.fields.values(): for analyzer_name in ('analyzer', 'index_analyzer', 'search_analyzer'): ...
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ChristopherRabotin/bungiesearch
bungiesearch/indices.py
ModelIndex.serialize_object
def serialize_object(self, obj, obj_pk=None): ''' Serializes an object for it to be added to the index. :param obj: Object to be serialized. Optional if obj_pk is passed. :param obj_pk: Object primary key. Superseded by `obj` if available. :return: A dictionary representing the ...
python
def serialize_object(self, obj, obj_pk=None): ''' Serializes an object for it to be added to the index. :param obj: Object to be serialized. Optional if obj_pk is passed. :param obj_pk: Object primary key. Superseded by `obj` if available. :return: A dictionary representing the ...
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ChristopherRabotin/bungiesearch
bungiesearch/indices.py
ModelIndex._get_fields
def _get_fields(self, fields, excludes, hotfixes): ''' Given any explicit fields to include and fields to exclude, add additional fields based on the associated model. If the field needs a hotfix, apply it. ''' final_fields = {} fields = fields or [] excludes = ex...
python
def _get_fields(self, fields, excludes, hotfixes): ''' Given any explicit fields to include and fields to exclude, add additional fields based on the associated model. If the field needs a hotfix, apply it. ''' final_fields = {} fields = fields or [] excludes = ex...
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cwacek/python-jsonschema-objects
python_jsonschema_objects/wrapper_types.py
ArrayWrapper.validate_items
def validate_items(self): """ Validates the items in the backing array, including performing type validation. Sets the _typed property and clears the dirty flag as a side effect Returns: The typed array """ logger.debug(fmt("Validating {}", self)) fr...
python
def validate_items(self): """ Validates the items in the backing array, including performing type validation. Sets the _typed property and clears the dirty flag as a side effect Returns: The typed array """ logger.debug(fmt("Validating {}", self)) fr...
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cwacek/python-jsonschema-objects
python_jsonschema_objects/wrapper_types.py
ArrayWrapper.create
def create(name, item_constraint=None, **addl_constraints): """ Create an array validator based on the passed in constraints. If item_constraint is a tuple, it is assumed that tuple validation is being performed. If it is a class or dictionary, list validation will be performed. Classes...
python
def create(name, item_constraint=None, **addl_constraints): """ Create an array validator based on the passed in constraints. If item_constraint is a tuple, it is assumed that tuple validation is being performed. If it is a class or dictionary, list validation will be performed. Classes...
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cwacek/python-jsonschema-objects
python_jsonschema_objects/markdown_support.py
SpecialFencedCodeExtension.extendMarkdown
def extendMarkdown(self, md, md_globals): """ Add FencedBlockPreprocessor to the Markdown instance. """ md.registerExtension(self) md.preprocessors.add('fenced_code_block', SpecialFencePreprocessor(md), ">normalize_whitespace")
python
def extendMarkdown(self, md, md_globals): """ Add FencedBlockPreprocessor to the Markdown instance. """ md.registerExtension(self) md.preprocessors.add('fenced_code_block', SpecialFencePreprocessor(md), ">normalize_whitespace")
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cwacek/python-jsonschema-objects
setup.py
parse_requirements
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python
def parse_requirements(path): """Rudimentary parser for the `requirements.txt` file We just want to separate regular packages from links to pass them to the `install_requires` and `dependency_links` params of the `setup()` function properly. """ try: print(os.path.join(os.path.dirname(_...
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cwacek/python-jsonschema-objects
python_jsonschema_objects/util.py
propmerge
def propmerge(into, data_from): """ Merge JSON schema requirements into a dictionary """ newprops = copy.deepcopy(into) for prop, propval in six.iteritems(data_from): if prop not in newprops: newprops[prop] = propval continue new_sp = newprops[prop] for subp...
python
def propmerge(into, data_from): """ Merge JSON schema requirements into a dictionary """ newprops = copy.deepcopy(into) for prop, propval in six.iteritems(data_from): if prop not in newprops: newprops[prop] = propval continue new_sp = newprops[prop] for subp...
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cwacek/python-jsonschema-objects
python_jsonschema_objects/classbuilder.py
ProtocolBase.as_dict
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python
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cwacek/python-jsonschema-objects
python_jsonschema_objects/classbuilder.py
ProtocolBase.from_json
def from_json(cls, jsonmsg): """ Create an object directly from a JSON string. Applies general validation after creating the object to check whether all required fields are present. Args: jsonmsg (str): An object encoded as a JSON string Returns: ...
python
def from_json(cls, jsonmsg): """ Create an object directly from a JSON string. Applies general validation after creating the object to check whether all required fields are present. Args: jsonmsg (str): An object encoded as a JSON string Returns: ...
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cwacek/python-jsonschema-objects
python_jsonschema_objects/classbuilder.py
ProtocolBase.validate
def validate(self): """ Applies all defined validation to the current state of the object, and raises an error if they are not all met. Raises: ValidationError: if validations do not pass """ missing = self.missing_property_names() if len(missing) >...
python
def validate(self): """ Applies all defined validation to the current state of the object, and raises an error if they are not all met. Raises: ValidationError: if validations do not pass """ missing = self.missing_property_names() if len(missing) >...
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cwacek/python-jsonschema-objects
python_jsonschema_objects/classbuilder.py
ProtocolBase.missing_property_names
def missing_property_names(self): """ Returns a list of properties which are required and missing. Properties are excluded from this list if they are allowed to be null. :return: list of missing properties. """ propname = lambda x: self.__prop_names__[x] missin...
python
def missing_property_names(self): """ Returns a list of properties which are required and missing. Properties are excluded from this list if they are allowed to be null. :return: list of missing properties. """ propname = lambda x: self.__prop_names__[x] missin...
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cwacek/python-jsonschema-objects
python_jsonschema_objects/classbuilder.py
ClassBuilder.construct
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python
def construct(self, uri, *args, **kw): """ Wrapper to debug things """ logger.debug(util.lazy_format("Constructing {0}", uri)) if ('override' not in kw or kw['override'] is False) \ and uri in self.resolved: logger.debug(util.lazy_format("Using existing {0}", uri)) ...
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cwacek/python-jsonschema-objects
python_jsonschema_objects/classbuilder.py
ClassBuilder._build_literal
def _build_literal(self, nm, clsdata): """@todo: Docstring for _build_literal :nm: @todo :clsdata: @todo :returns: @todo """ cls = type(str(nm), tuple((LiteralValue,)), { '__propinfo__': { '__literal__': clsdata, '__title__': clsdata.get('title'), ...
python
def _build_literal(self, nm, clsdata): """@todo: Docstring for _build_literal :nm: @todo :clsdata: @todo :returns: @todo """ cls = type(str(nm), tuple((LiteralValue,)), { '__propinfo__': { '__literal__': clsdata, '__title__': clsdata.get('title'), ...
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@todo: Docstring for _build_literal :nm: @todo :clsdata: @todo :returns: @todo
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https://github.com/cwacek/python-jsonschema-objects/blob/54c82bfaec9c099c472663742abfc7de373a5e49/python_jsonschema_objects/classbuilder.py#L540-L555
cwacek/python-jsonschema-objects
python_jsonschema_objects/classbuilder.py
ClassBuilder._build_object
def _build_object(self, nm, clsdata, parents,**kw): logger.debug(util.lazy_format("Building object {0}", nm)) # To support circular references, we tag objects that we're # currently building as "under construction" self.under_construction.add(nm) props = {} defaults = s...
python
def _build_object(self, nm, clsdata, parents,**kw): logger.debug(util.lazy_format("Building object {0}", nm)) # To support circular references, we tag objects that we're # currently building as "under construction" self.under_construction.add(nm) props = {} defaults = s...
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If this object itself has a 'oneOf' designation, then make the validation 'type' the list of potential objects.
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cwacek/python-jsonschema-objects
python_jsonschema_objects/__init__.py
ObjectBuilder.build_classes
def build_classes(self,strict=False, named_only=False, standardize_names=True): """ Build all of the classes named in the JSONSchema. Class names will be transformed using inflection by default, so names with spaces in the schema will be camelcased, while names without spaces wi...
python
def build_classes(self,strict=False, named_only=False, standardize_names=True): """ Build all of the classes named in the JSONSchema. Class names will be transformed using inflection by default, so names with spaces in the schema will be camelcased, while names without spaces wi...
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Build all of the classes named in the JSONSchema. Class names will be transformed using inflection by default, so names with spaces in the schema will be camelcased, while names without spaces will have internal capitalization dropped. Thus "Home Address" becomes "HomeAddress", while "H...
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train
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pytroll/python-geotiepoints
geotiepoints/basic_interpolator.py
BasicSatelliteInterpolator._interp
def _interp(self, data): """The interpolation method implemented here is a kind of a billinear interpolation. The input *data* field is first interpolated along the rows and subsequently along its columns. The final size of the interpolated *data* field is determined by the la...
python
def _interp(self, data): """The interpolation method implemented here is a kind of a billinear interpolation. The input *data* field is first interpolated along the rows and subsequently along its columns. The final size of the interpolated *data* field is determined by the la...
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The interpolation method implemented here is a kind of a billinear interpolation. The input *data* field is first interpolated along the rows and subsequently along its columns. The final size of the interpolated *data* field is determined by the last indices in self.row_indices and s...
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pytroll/python-geotiepoints
geotiepoints/basic_interpolator.py
BasicSatelliteInterpolator._interp_axis
def _interp_axis(self, data, axis): """The *data* field contains the data to be interpolated. It is expected that values reach out to the *data* boundaries. With *axis*=0 this method interpolates along rows and *axis*=1 it interpolates along colums. For column mode the *data* in...
python
def _interp_axis(self, data, axis): """The *data* field contains the data to be interpolated. It is expected that values reach out to the *data* boundaries. With *axis*=0 this method interpolates along rows and *axis*=1 it interpolates along colums. For column mode the *data* in...
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pytroll/python-geotiepoints
geotiepoints/basic_interpolator.py
BasicSatelliteInterpolator._pandas_interp
def _pandas_interp(self, data, indices): """The actual transformation based on the following stackoverflow entry: http://stackoverflow.com/a/10465162 """ new_index = np.arange(indices[-1] + 1) data_frame = DataFrame(data, index=indices) data_frame_reindexed = data_frame...
python
def _pandas_interp(self, data, indices): """The actual transformation based on the following stackoverflow entry: http://stackoverflow.com/a/10465162 """ new_index = np.arange(indices[-1] + 1) data_frame = DataFrame(data, index=indices) data_frame_reindexed = data_frame...
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The actual transformation based on the following stackoverflow entry: http://stackoverflow.com/a/10465162
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pytroll/python-geotiepoints
geotiepoints/basic_interpolator.py
BasicSatelliteInterpolator.interpolate
def interpolate(self): """Do the interpolation and return resulting longitudes and latitudes. """ self.latitude = self._interp(self.lat_tiepoint) self.longitude = self._interp(self.lon_tiepoint) return self.latitude, self.longitude
python
def interpolate(self): """Do the interpolation and return resulting longitudes and latitudes. """ self.latitude = self._interp(self.lat_tiepoint) self.longitude = self._interp(self.lon_tiepoint) return self.latitude, self.longitude
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Do the interpolation and return resulting longitudes and latitudes.
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EliotBerriot/lifter
lifter/backends/python.py
DummyStore._execute
def _execute(self, query, model, adapter, raw=False): """ We have to override this because in some situation (such as with Filebackend, or any dummy backend) we have to parse / adapt results *before* when can execute the query """ values = self.load(model, adapter) ...
python
def _execute(self, query, model, adapter, raw=False): """ We have to override this because in some situation (such as with Filebackend, or any dummy backend) we have to parse / adapt results *before* when can execute the query """ values = self.load(model, adapter) ...
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We have to override this because in some situation (such as with Filebackend, or any dummy backend) we have to parse / adapt results *before* when can execute the query
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EliotBerriot/lifter
lifter/caches.py
Cache.get
def get(self, key, default=None, reraise=False): """ Get the given key from the cache, if present. A default value can be provided in case the requested key is not present, otherwise, None will be returned. :param key: the key to query :type key: str :param defau...
python
def get(self, key, default=None, reraise=False): """ Get the given key from the cache, if present. A default value can be provided in case the requested key is not present, otherwise, None will be returned. :param key: the key to query :type key: str :param defau...
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Get the given key from the cache, if present. A default value can be provided in case the requested key is not present, otherwise, None will be returned. :param key: the key to query :type key: str :param default: the value to return if the key does not exist in cache :p...
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EliotBerriot/lifter
lifter/caches.py
Cache.set
def set(self, key, value, timeout=NotSet): """ Set the given key to the given value in the cache. A timeout may be provided, otherwise, the :py:attr:`Cache.default_timeout` will be used. :param key: the key to which the value will be bound :type key: str :param v...
python
def set(self, key, value, timeout=NotSet): """ Set the given key to the given value in the cache. A timeout may be provided, otherwise, the :py:attr:`Cache.default_timeout` will be used. :param key: the key to which the value will be bound :type key: str :param v...
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EliotBerriot/lifter
lifter/utils.py
resolve_attr
def resolve_attr(obj, name): """A custom attrgetter that operates both on dictionaries and objects""" # TODO: setup some hinting, so we can go directly to the correct # Maybe it's a dict ? Let's try dict lookup, it's the fastest try: return obj[name] except TypeError: pass except...
python
def resolve_attr(obj, name): """A custom attrgetter that operates both on dictionaries and objects""" # TODO: setup some hinting, so we can go directly to the correct # Maybe it's a dict ? Let's try dict lookup, it's the fastest try: return obj[name] except TypeError: pass except...
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EliotBerriot/lifter
lifter/utils.py
unique_everseen
def unique_everseen(seq): """Solution found here : http://stackoverflow.com/questions/480214/how-do-you-remove-duplicates-from-a-list-in-python-whilst-preserving-order""" seen = set() seen_add = seen.add return [x for x in seq if not (x in seen or seen_add(x))]
python
def unique_everseen(seq): """Solution found here : http://stackoverflow.com/questions/480214/how-do-you-remove-duplicates-from-a-list-in-python-whilst-preserving-order""" seen = set() seen_add = seen.add return [x for x in seq if not (x in seen or seen_add(x))]
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EliotBerriot/lifter
lifter/query.py
QuerySet.hints
def hints(self, **kwargs): """ Use this method to update hints value of the underlying query example: queryset.hints(permissive=False) """ new_query = self.query.clone() new_query.hints.update(kwargs) return self._clone(query=new_query)
python
def hints(self, **kwargs): """ Use this method to update hints value of the underlying query example: queryset.hints(permissive=False) """ new_query = self.query.clone() new_query.hints.update(kwargs) return self._clone(query=new_query)
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Use this method to update hints value of the underlying query example: queryset.hints(permissive=False)
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EliotBerriot/lifter
lifter/query.py
QuerySet.build_filter_from_kwargs
def build_filter_from_kwargs(self, **kwargs): """Convert django-s like lookup to SQLAlchemy ones""" query = None for path_to_convert, value in kwargs.items(): path_parts = path_to_convert.split('__') lookup_class = None try: # We check if the ...
python
def build_filter_from_kwargs(self, **kwargs): """Convert django-s like lookup to SQLAlchemy ones""" query = None for path_to_convert, value in kwargs.items(): path_parts = path_to_convert.split('__') lookup_class = None try: # We check if the ...
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EliotBerriot/lifter
lifter/query.py
QuerySet.locally
def locally(self): """ Will execute the current queryset and pass it to the python backend so user can run query on the local dataset (instead of contacting the store) """ from .backends import python from . import models store = python.IterableStore(values=self...
python
def locally(self): """ Will execute the current queryset and pass it to the python backend so user can run query on the local dataset (instead of contacting the store) """ from .backends import python from . import models store = python.IterableStore(values=self...
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pytroll/python-geotiepoints
geotiepoints/__init__.py
get_scene_splits
def get_scene_splits(nlines_swath, nlines_scan, n_cpus): """Calculate the line numbers where the swath will be split in smaller granules for parallel processing""" nscans = nlines_swath // nlines_scan if nscans < n_cpus: nscans_subscene = 1 else: nscans_subscene = nscans // n_cpus ...
python
def get_scene_splits(nlines_swath, nlines_scan, n_cpus): """Calculate the line numbers where the swath will be split in smaller granules for parallel processing""" nscans = nlines_swath // nlines_scan if nscans < n_cpus: nscans_subscene = 1 else: nscans_subscene = nscans // n_cpus ...
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Calculate the line numbers where the swath will be split in smaller granules for parallel processing
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pytroll/python-geotiepoints
geotiepoints/__init__.py
metop20kmto1km
def metop20kmto1km(lons20km, lats20km): """Getting 1km geolocation for metop avhrr from 20km tiepoints. """ cols20km = np.array([0] + list(range(4, 2048, 20)) + [2047]) cols1km = np.arange(2048) lines = lons20km.shape[0] rows20km = np.arange(lines) rows1km = np.arange(lines) along_track...
python
def metop20kmto1km(lons20km, lats20km): """Getting 1km geolocation for metop avhrr from 20km tiepoints. """ cols20km = np.array([0] + list(range(4, 2048, 20)) + [2047]) cols1km = np.arange(2048) lines = lons20km.shape[0] rows20km = np.arange(lines) rows1km = np.arange(lines) along_track...
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Getting 1km geolocation for metop avhrr from 20km tiepoints.
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pytroll/python-geotiepoints
geotiepoints/__init__.py
modis5kmto1km
def modis5kmto1km(lons5km, lats5km): """Getting 1km geolocation for modis from 5km tiepoints. http://www.icare.univ-lille1.fr/tutorials/MODIS_geolocation """ cols5km = np.arange(2, 1354, 5) / 5.0 cols1km = np.arange(1354) / 5.0 lines = lons5km.shape[0] * 5 rows5km = np.arange(2, lines, 5) /...
python
def modis5kmto1km(lons5km, lats5km): """Getting 1km geolocation for modis from 5km tiepoints. http://www.icare.univ-lille1.fr/tutorials/MODIS_geolocation """ cols5km = np.arange(2, 1354, 5) / 5.0 cols1km = np.arange(1354) / 5.0 lines = lons5km.shape[0] * 5 rows5km = np.arange(2, lines, 5) /...
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pytroll/python-geotiepoints
geotiepoints/__init__.py
_multi
def _multi(fun, lons, lats, chunk_size, cores=1): """Work on multiple cores. """ pool = Pool(processes=cores) splits = get_scene_splits(lons.shape[0], chunk_size, cores) lons_parts = np.vsplit(lons, splits) lats_parts = np.vsplit(lats, splits) results = [pool.apply_async(fun, ...
python
def _multi(fun, lons, lats, chunk_size, cores=1): """Work on multiple cores. """ pool = Pool(processes=cores) splits = get_scene_splits(lons.shape[0], chunk_size, cores) lons_parts = np.vsplit(lons, splits) lats_parts = np.vsplit(lats, splits) results = [pool.apply_async(fun, ...
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pytroll/python-geotiepoints
geotiepoints/__init__.py
modis1kmto500m
def modis1kmto500m(lons1km, lats1km, cores=1): """Getting 500m geolocation for modis from 1km tiepoints. http://www.icare.univ-lille1.fr/tutorials/MODIS_geolocation """ if cores > 1: return _multi(modis1kmto500m, lons1km, lats1km, 10, cores) cols1km = np.arange(1354) cols500m = np.aran...
python
def modis1kmto500m(lons1km, lats1km, cores=1): """Getting 500m geolocation for modis from 1km tiepoints. http://www.icare.univ-lille1.fr/tutorials/MODIS_geolocation """ if cores > 1: return _multi(modis1kmto500m, lons1km, lats1km, 10, cores) cols1km = np.arange(1354) cols500m = np.aran...
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pytroll/python-geotiepoints
geotiepoints/__init__.py
modis1kmto250m
def modis1kmto250m(lons1km, lats1km, cores=1): """Getting 250m geolocation for modis from 1km tiepoints. http://www.icare.univ-lille1.fr/tutorials/MODIS_geolocation """ if cores > 1: return _multi(modis1kmto250m, lons1km, lats1km, 10, cores) cols1km = np.arange(1354) cols250m = np.aran...
python
def modis1kmto250m(lons1km, lats1km, cores=1): """Getting 250m geolocation for modis from 1km tiepoints. http://www.icare.univ-lille1.fr/tutorials/MODIS_geolocation """ if cores > 1: return _multi(modis1kmto250m, lons1km, lats1km, 10, cores) cols1km = np.arange(1354) cols250m = np.aran...
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pytroll/python-geotiepoints
geotiepoints/interpolator.py
generic_modis5kmto1km
def generic_modis5kmto1km(*data5km): """Getting 1km data for modis from 5km tiepoints. """ cols5km = np.arange(2, 1354, 5) cols1km = np.arange(1354) lines = data5km[0].shape[0] * 5 rows5km = np.arange(2, lines, 5) rows1km = np.arange(lines) along_track_order = 1 cross_track_order = ...
python
def generic_modis5kmto1km(*data5km): """Getting 1km data for modis from 5km tiepoints. """ cols5km = np.arange(2, 1354, 5) cols1km = np.arange(1354) lines = data5km[0].shape[0] * 5 rows5km = np.arange(2, lines, 5) rows1km = np.arange(lines) along_track_order = 1 cross_track_order = ...
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pytroll/python-geotiepoints
geotiepoints/interpolator.py
Interpolator.fill_borders
def fill_borders(self, *args): """Extrapolate tiepoint lons and lats to fill in the border of the chunks. """ to_run = [] cases = {"y": self._fill_row_borders, "x": self._fill_col_borders} for dim in args: try: to_run.append(c...
python
def fill_borders(self, *args): """Extrapolate tiepoint lons and lats to fill in the border of the chunks. """ to_run = [] cases = {"y": self._fill_row_borders, "x": self._fill_col_borders} for dim in args: try: to_run.append(c...
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pytroll/python-geotiepoints
geotiepoints/interpolator.py
Interpolator._extrapolate_cols
def _extrapolate_cols(self, data, first=True, last=True): """Extrapolate the column of data, to get the first and last together with the data. """ if first: pos = self.col_indices[:2] first_column = _linear_extrapolate(pos, ...
python
def _extrapolate_cols(self, data, first=True, last=True): """Extrapolate the column of data, to get the first and last together with the data. """ if first: pos = self.col_indices[:2] first_column = _linear_extrapolate(pos, ...
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pytroll/python-geotiepoints
geotiepoints/interpolator.py
Interpolator._fill_col_borders
def _fill_col_borders(self): """Add the first and last column to the data by extrapolation. """ first = True last = True if self.col_indices[0] == self.hcol_indices[0]: first = False if self.col_indices[-1] == self.hcol_indices[-1]: last = False ...
python
def _fill_col_borders(self): """Add the first and last column to the data by extrapolation. """ first = True last = True if self.col_indices[0] == self.hcol_indices[0]: first = False if self.col_indices[-1] == self.hcol_indices[-1]: last = False ...
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pytroll/python-geotiepoints
geotiepoints/interpolator.py
Interpolator._extrapolate_rows
def _extrapolate_rows(self, data, row_indices, first_index, last_index): """Extrapolate the rows of data, to get the first and last together with the data. """ pos = row_indices[:2] first_row = _linear_extrapolate(pos, (data[0, :], data[1,...
python
def _extrapolate_rows(self, data, row_indices, first_index, last_index): """Extrapolate the rows of data, to get the first and last together with the data. """ pos = row_indices[:2] first_row = _linear_extrapolate(pos, (data[0, :], data[1,...
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pytroll/python-geotiepoints
geotiepoints/interpolator.py
Interpolator._fill_row_borders
def _fill_row_borders(self): """Add the first and last rows to the data by extrapolation. """ lines = len(self.hrow_indices) chunk_size = self.chunk_size or lines factor = len(self.hrow_indices) / len(self.row_indices) tmp_data = [] for num in range(len(self.tie_...
python
def _fill_row_borders(self): """Add the first and last rows to the data by extrapolation. """ lines = len(self.hrow_indices) chunk_size = self.chunk_size or lines factor = len(self.hrow_indices) / len(self.row_indices) tmp_data = [] for num in range(len(self.tie_...
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pytroll/python-geotiepoints
geotiepoints/interpolator.py
Interpolator._interp
def _interp(self): """Interpolate the cartesian coordinates. """ if np.all(self.hrow_indices == self.row_indices): return self._interp1d() xpoints, ypoints = np.meshgrid(self.hrow_indices, self.hcol_indices) for num, data in en...
python
def _interp(self): """Interpolate the cartesian coordinates. """ if np.all(self.hrow_indices == self.row_indices): return self._interp1d() xpoints, ypoints = np.meshgrid(self.hrow_indices, self.hcol_indices) for num, data in en...
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pytroll/python-geotiepoints
geotiepoints/interpolator.py
Interpolator._interp1d
def _interp1d(self): """Interpolate in one dimension. """ lines = len(self.hrow_indices) for num, data in enumerate(self.tie_data): self.new_data[num] = np.empty((len(self.hrow_indices), len(self.hcol_indices)), ...
python
def _interp1d(self): """Interpolate in one dimension. """ lines = len(self.hrow_indices) for num, data in enumerate(self.tie_data): self.new_data[num] = np.empty((len(self.hrow_indices), len(self.hcol_indices)), ...
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Interpolate in one dimension.
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pytroll/python-geotiepoints
geotiepoints/geointerpolator.py
get_lons_from_cartesian
def get_lons_from_cartesian(x__, y__): """Get longitudes from cartesian coordinates. """ return rad2deg(arccos(x__ / sqrt(x__ ** 2 + y__ ** 2))) * sign(y__)
python
def get_lons_from_cartesian(x__, y__): """Get longitudes from cartesian coordinates. """ return rad2deg(arccos(x__ / sqrt(x__ ** 2 + y__ ** 2))) * sign(y__)
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pytroll/python-geotiepoints
geotiepoints/geointerpolator.py
get_lats_from_cartesian
def get_lats_from_cartesian(x__, y__, z__, thr=0.8): """Get latitudes from cartesian coordinates. """ # if we are at low latitudes - small z, then get the # latitudes only from z. If we are at high latitudes (close to the poles) # then derive the latitude using x and y: lats = np.where(np.logic...
python
def get_lats_from_cartesian(x__, y__, z__, thr=0.8): """Get latitudes from cartesian coordinates. """ # if we are at low latitudes - small z, then get the # latitudes only from z. If we are at high latitudes (close to the poles) # then derive the latitude using x and y: lats = np.where(np.logic...
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Get latitudes from cartesian coordinates.
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pytroll/python-geotiepoints
geotiepoints/geointerpolator.py
GeoInterpolator.set_tiepoints
def set_tiepoints(self, lon, lat): """Defines the lon,lat tie points. """ self.lon_tiepoint = lon self.lat_tiepoint = lat
python
def set_tiepoints(self, lon, lat): """Defines the lon,lat tie points. """ self.lon_tiepoint = lon self.lat_tiepoint = lat
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Defines the lon,lat tie points.
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pytroll/python-geotiepoints
geotiepoints/modisinterpolator.py
compute_expansion_alignment
def compute_expansion_alignment(satz_a, satz_b, satz_c, satz_d): """All angles in radians.""" zeta_a = satz_a zeta_b = satz_b phi_a = compute_phi(zeta_a) phi_b = compute_phi(zeta_b) theta_a = compute_theta(zeta_a, phi_a) theta_b = compute_theta(zeta_b, phi_b) phi = (phi_a + phi_b) / 2 ...
python
def compute_expansion_alignment(satz_a, satz_b, satz_c, satz_d): """All angles in radians.""" zeta_a = satz_a zeta_b = satz_b phi_a = compute_phi(zeta_a) phi_b = compute_phi(zeta_b) theta_a = compute_theta(zeta_a, phi_a) theta_b = compute_theta(zeta_b, phi_b) phi = (phi_a + phi_b) / 2 ...
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All angles in radians.
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pytroll/python-geotiepoints
geotiepoints/modisinterpolator.py
lonlat2xyz
def lonlat2xyz(lons, lats): """Convert lons and lats to cartesian coordinates.""" R = 6370997.0 x_coords = R * da.cos(da.deg2rad(lats)) * da.cos(da.deg2rad(lons)) y_coords = R * da.cos(da.deg2rad(lats)) * da.sin(da.deg2rad(lons)) z_coords = R * da.sin(da.deg2rad(lats)) return x_coords, y_coords,...
python
def lonlat2xyz(lons, lats): """Convert lons and lats to cartesian coordinates.""" R = 6370997.0 x_coords = R * da.cos(da.deg2rad(lats)) * da.cos(da.deg2rad(lons)) y_coords = R * da.cos(da.deg2rad(lats)) * da.sin(da.deg2rad(lons)) z_coords = R * da.sin(da.deg2rad(lats)) return x_coords, y_coords,...
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Convert lons and lats to cartesian coordinates.
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pytroll/python-geotiepoints
geotiepoints/modisinterpolator.py
xyz2lonlat
def xyz2lonlat(x__, y__, z__): """Get longitudes from cartesian coordinates. """ R = 6370997.0 lons = da.rad2deg(da.arccos(x__ / da.sqrt(x__ ** 2 + y__ ** 2))) * da.sign(y__) lats = da.sign(z__) * (90 - da.rad2deg(da.arcsin(da.sqrt(x__ ** 2 + y__ ** 2) / R))) return lons, lats
python
def xyz2lonlat(x__, y__, z__): """Get longitudes from cartesian coordinates. """ R = 6370997.0 lons = da.rad2deg(da.arccos(x__ / da.sqrt(x__ ** 2 + y__ ** 2))) * da.sign(y__) lats = da.sign(z__) * (90 - da.rad2deg(da.arcsin(da.sqrt(x__ ** 2 + y__ ** 2) / R))) return lons, lats
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Get longitudes from cartesian coordinates.
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EliotBerriot/lifter
lifter/backends/base.py
setup_fields
def setup_fields(attrs): """ Collect all fields declared on the class and remove them from attrs """ fields = {} iterator = list(attrs.items()) for key, value in iterator: if not isinstance(value, Field): continue fields[key] = value del attrs[key] return ...
python
def setup_fields(attrs): """ Collect all fields declared on the class and remove them from attrs """ fields = {} iterator = list(attrs.items()) for key, value in iterator: if not isinstance(value, Field): continue fields[key] = value del attrs[key] return ...
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Collect all fields declared on the class and remove them from attrs
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openstax/cnxml
cnxml/jing.py
_parse_jing_line
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python
def _parse_jing_line(line): """Parse a line of jing output to a list of line, column, type and message. """ parts = line.split(':', 4) filename, line, column, type_, message = [x.strip() for x in parts] if type_ == 'fatal': if message in KNOWN_FATAL_MESSAGES_MAPPING: message...
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openstax/cnxml
cnxml/jing.py
_parse_jing_output
def _parse_jing_output(output): """Parse the jing output into a tuple of line, column, type and message. """ output = output.strip() values = [_parse_jing_line(l) for l in output.split('\n') if l] return tuple(values)
python
def _parse_jing_output(output): """Parse the jing output into a tuple of line, column, type and message. """ output = output.strip() values = [_parse_jing_line(l) for l in output.split('\n') if l] return tuple(values)
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openstax/cnxml
cnxml/jing.py
jing
def jing(rng_filepath, *xml_filepaths): """Run jing.jar using the RNG file against the given XML file.""" cmd = ['java', '-jar'] cmd.extend([str(JING_JAR), str(rng_filepath)]) for xml_filepath in xml_filepaths: cmd.append(str(xml_filepath)) proc = subprocess.Popen(cmd, ...
python
def jing(rng_filepath, *xml_filepaths): """Run jing.jar using the RNG file against the given XML file.""" cmd = ['java', '-jar'] cmd.extend([str(JING_JAR), str(rng_filepath)]) for xml_filepath in xml_filepaths: cmd.append(str(xml_filepath)) proc = subprocess.Popen(cmd, ...
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train
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asottile/aspy.refactor_imports
aspy/refactor_imports/import_obj.py
import_obj_from_str
def import_obj_from_str(s): """Returns an import object (either ImportImport or FromImport) from text. """ ast_obj = ast.parse(s).body[0] return ast_type_to_import_type[type(ast_obj)](ast_obj)
python
def import_obj_from_str(s): """Returns an import object (either ImportImport or FromImport) from text. """ ast_obj = ast.parse(s).body[0] return ast_type_to_import_type[type(ast_obj)](ast_obj)
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train
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asottile/aspy.refactor_imports
aspy/refactor_imports/import_obj.py
AbstractImportObj.from_str
def from_str(cls, s): """Construct an import object from a string.""" ast_obj = ast.parse(s).body[0] if not isinstance(ast_obj, cls._expected_ast_type): raise AssertionError( 'Expected ast of type {!r} but got {!r}'.format( cls._expected_ast_type, ...
python
def from_str(cls, s): """Construct an import object from a string.""" ast_obj = ast.parse(s).body[0] if not isinstance(ast_obj, cls._expected_ast_type): raise AssertionError( 'Expected ast of type {!r} but got {!r}'.format( cls._expected_ast_type, ...
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Construct an import object from a string.
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train
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asottile/aspy.refactor_imports
aspy/refactor_imports/sort.py
sort
def sort(imports, separate=True, import_before_from=True, **classify_kwargs): """Sort import objects into groups. :param list imports: FromImport / ImportImport objects :param bool separate: Whether to classify and return separate segments of imports based on classification. :param bool import_...
python
def sort(imports, separate=True, import_before_from=True, **classify_kwargs): """Sort import objects into groups. :param list imports: FromImport / ImportImport objects :param bool separate: Whether to classify and return separate segments of imports based on classification. :param bool import_...
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train
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asottile/aspy.refactor_imports
aspy/refactor_imports/classify.py
classify_import
def classify_import(module_name, application_directories=('.',)): """Classifies an import by its package. Returns a value in ImportType.__all__ :param text module_name: The dotted notation of a module :param tuple application_directories: tuple of paths which are considered application roots. ...
python
def classify_import(module_name, application_directories=('.',)): """Classifies an import by its package. Returns a value in ImportType.__all__ :param text module_name: The dotted notation of a module :param tuple application_directories: tuple of paths which are considered application roots. ...
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Classifies an import by its package. Returns a value in ImportType.__all__ :param text module_name: The dotted notation of a module :param tuple application_directories: tuple of paths which are considered application roots.
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openstax/cnxml
cnxml/cli.py
_arg_parser
def _arg_parser(): """Factory for creating the argument parser""" parser = argparse.ArgumentParser(description=__doc__) parser.add_argument('xml', nargs='*') return parser
python
def _arg_parser(): """Factory for creating the argument parser""" parser = argparse.ArgumentParser(description=__doc__) parser.add_argument('xml', nargs='*') return parser
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openstax/cnxml
cnxml/parse.py
parse_metadata
def parse_metadata(elm_tree): """Given an element-like object (:mod:`lxml.etree`) lookup the metadata and return the found elements :param elm_tree: the root xml element :type elm_tree: an element-like object from :mod:`lxml.etree` :returns: common metadata properties :rtype: dict """ ...
python
def parse_metadata(elm_tree): """Given an element-like object (:mod:`lxml.etree`) lookup the metadata and return the found elements :param elm_tree: the root xml element :type elm_tree: an element-like object from :mod:`lxml.etree` :returns: common metadata properties :rtype: dict """ ...
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openstax/cnxml
cnxml/validation.py
validate_cnxml
def validate_cnxml(*content_filepaths): """Validates the given CNXML file against the cnxml-jing.rng RNG.""" content_filepaths = [Path(path).resolve() for path in content_filepaths] return jing(CNXML_JING_RNG, *content_filepaths)
python
def validate_cnxml(*content_filepaths): """Validates the given CNXML file against the cnxml-jing.rng RNG.""" content_filepaths = [Path(path).resolve() for path in content_filepaths] return jing(CNXML_JING_RNG, *content_filepaths)
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openstax/cnxml
cnxml/validation.py
validate_collxml
def validate_collxml(*content_filepaths): """Validates the given COLLXML file against the collxml-jing.rng RNG.""" content_filepaths = [Path(path).resolve() for path in content_filepaths] return jing(COLLXML_JING_RNG, *content_filepaths)
python
def validate_collxml(*content_filepaths): """Validates the given COLLXML file against the collxml-jing.rng RNG.""" content_filepaths = [Path(path).resolve() for path in content_filepaths] return jing(COLLXML_JING_RNG, *content_filepaths)
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fhcrc/taxtastic
taxtastic/subcommands/rollback.py
action
def action(args): """Roll back commands on a refpkg. *args* should be an argparse object with fields refpkg (giving the path to the refpkg to operate on) and n (giving the number of operations to roll back). """ log.info('loading reference package') r = refpkg.Refpkg(args.refpkg, create=Fa...
python
def action(args): """Roll back commands on a refpkg. *args* should be an argparse object with fields refpkg (giving the path to the refpkg to operate on) and n (giving the number of operations to roll back). """ log.info('loading reference package') r = refpkg.Refpkg(args.refpkg, create=Fa...
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amicks/Speculator
speculator/market.py
set_targets
def set_targets(x, delta=10): """ Sets target market trend for a date Args: x: Pandas DataFrame of market features delta: Positive number defining a price buffer between what is classified as a bullish/bearish market for the training set. delta is equivalent to the total...
python
def set_targets(x, delta=10): """ Sets target market trend for a date Args: x: Pandas DataFrame of market features delta: Positive number defining a price buffer between what is classified as a bullish/bearish market for the training set. delta is equivalent to the total...
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amicks/Speculator
speculator/market.py
eval_features
def eval_features(json): """ Gets technical analysis features from market data JSONs Args: json: JSON data as a list of dict dates, where the keys are the raw market statistics. Returns: Dict of market features and their values """ return {'close' : json[-1]['close']...
python
def eval_features(json): """ Gets technical analysis features from market data JSONs Args: json: JSON data as a list of dict dates, where the keys are the raw market statistics. Returns: Dict of market features and their values """ return {'close' : json[-1]['close']...
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amicks/Speculator
speculator/market.py
target_code_to_name
def target_code_to_name(code): """ Converts an int target code to a target name Since self.TARGET_CODES is a 1:1 mapping, perform a reverse lookup to get the more readable name. Args: code: Value from self.TARGET_CODES Returns: String target name corresponding to the given code. ...
python
def target_code_to_name(code): """ Converts an int target code to a target name Since self.TARGET_CODES is a 1:1 mapping, perform a reverse lookup to get the more readable name. Args: code: Value from self.TARGET_CODES Returns: String target name corresponding to the given code. ...
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amicks/Speculator
speculator/market.py
setup_model
def setup_model(x, y, model_type='random_forest', seed=None, **kwargs): """ Initializes a machine learning model Args: x: Pandas DataFrame, X axis of features y: Pandas Series, Y axis of targets model_type: Machine Learning model to use Valid values: 'random_forest' ...
python
def setup_model(x, y, model_type='random_forest', seed=None, **kwargs): """ Initializes a machine learning model Args: x: Pandas DataFrame, X axis of features y: Pandas Series, Y axis of targets model_type: Machine Learning model to use Valid values: 'random_forest' ...
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amicks/Speculator
speculator/market.py
Market.get_json
def get_json(self): """ Gets market chart data from today to a previous date """ today = dt.now() DIRECTION = 'last' epochs = date.get_end_start_epochs(today.year, today.month, today.day, DIRECTION, self.unit, self.count) return poloniex...
python
def get_json(self): """ Gets market chart data from today to a previous date """ today = dt.now() DIRECTION = 'last' epochs = date.get_end_start_epochs(today.year, today.month, today.day, DIRECTION, self.unit, self.count) return poloniex...
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amicks/Speculator
speculator/market.py
Market.set_features
def set_features(self, partition=1): """ Parses market data JSON for technical analysis indicators Args: partition: Int of how many dates to take into consideration when evaluating technical analysis indicators. Returns: Pandas DataFrame instance with co...
python
def set_features(self, partition=1): """ Parses market data JSON for technical analysis indicators Args: partition: Int of how many dates to take into consideration when evaluating technical analysis indicators. Returns: Pandas DataFrame instance with co...
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amicks/Speculator
speculator/market.py
Market.set_long_features
def set_long_features(self, features, columns_to_set=[], partition=2): """ Sets features of double the duration Example: Setting 14 day RSIs to longer will create add a feature column of a 28 day RSIs. Args: features: Pandas DataFrame instance with columns as numpy.floa...
python
def set_long_features(self, features, columns_to_set=[], partition=2): """ Sets features of double the duration Example: Setting 14 day RSIs to longer will create add a feature column of a 28 day RSIs. Args: features: Pandas DataFrame instance with columns as numpy.floa...
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amicks/Speculator
speculator/models/random_forest.py
RandomForest.feature_importances
def feature_importances(self): """ Return list of features and their importance in classification """ feature_names = [feature for feature in self.features.train] return list(zip(feature_names, self.feature_importances_))
python
def feature_importances(self): """ Return list of features and their importance in classification """ feature_names = [feature for feature in self.features.train] return list(zip(feature_names, self.feature_importances_))
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seznam/shelter
shelter/commands/runserver.py
ProcessWrapper.exitcode
def exitcode(self): """ Process exit code. :const:`0` when process exited successfully, positive number when exception was occurred, negative number when process was signaled and :data:`None` when process has not exited yet. """ if self._process is None: ...
python
def exitcode(self): """ Process exit code. :const:`0` when process exited successfully, positive number when exception was occurred, negative number when process was signaled and :data:`None` when process has not exited yet. """ if self._process is None: ...
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seznam/shelter
shelter/commands/runserver.py
ProcessWrapper.start
def start(self): """ Run the process. """ if self: raise ProcessError( "Process '%s' has been already started" % self.name) first_run = not self.has_started # Run process self._process = self._process_cls(*self._process_args) se...
python
def start(self): """ Run the process. """ if self: raise ProcessError( "Process '%s' has been already started" % self.name) first_run = not self.has_started # Run process self._process = self._process_cls(*self._process_args) se...
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seznam/shelter
shelter/commands/runserver.py
TornadoProcess.stop
def stop(self): """ Stop the worker. """ if self._http_server is not None: self._http_server.stop() tornado.ioloop.IOLoop.instance().add_callback( tornado.ioloop.IOLoop.instance().stop)
python
def stop(self): """ Stop the worker. """ if self._http_server is not None: self._http_server.stop() tornado.ioloop.IOLoop.instance().add_callback( tornado.ioloop.IOLoop.instance().stop)
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seznam/shelter
shelter/commands/runserver.py
TornadoProcess.run
def run(self): """ Tornado worker which handles HTTP requests. """ setproctitle.setproctitle("{:s}: worker {:s}".format( self.context.config.name, self._tornado_app.settings['interface'].name)) self.logger.info( "Worker '%s' has been started wi...
python
def run(self): """ Tornado worker which handles HTTP requests. """ setproctitle.setproctitle("{:s}: worker {:s}".format( self.context.config.name, self._tornado_app.settings['interface'].name)) self.logger.info( "Worker '%s' has been started wi...
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seznam/shelter
shelter/commands/runserver.py
RunServer.initialize
def initialize(self): """ Initialize instance attributes. You can override this method in the subclasses. """ self.main_pid = os.getpid() self.processes.extend(self.init_service_processes()) self.processes.extend(self.init_tornado_workers())
python
def initialize(self): """ Initialize instance attributes. You can override this method in the subclasses. """ self.main_pid = os.getpid() self.processes.extend(self.init_service_processes()) self.processes.extend(self.init_tornado_workers())
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seznam/shelter
shelter/commands/runserver.py
RunServer.sigusr1_handler
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python
def sigusr1_handler(self, unused_signum, unused_frame): """ Handle SIGUSR1 signal. Call function which is defined in the **settings.SIGUSR1_HANDLER**. If main process, forward the signal to all child processes. """ for process in self.processes: if process.pid...
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seznam/shelter
shelter/commands/runserver.py
RunServer.init_service_processes
def init_service_processes(self): """ Prepare processes defined in the **settings.SERVICE_PROCESSES**. Return :class:`list` of the :class:`ProcessWrapper` instances. """ processes = [] for process_struct in getattr( self.context.config.settings, 'SERVICE_...
python
def init_service_processes(self): """ Prepare processes defined in the **settings.SERVICE_PROCESSES**. Return :class:`list` of the :class:`ProcessWrapper` instances. """ processes = [] for process_struct in getattr( self.context.config.settings, 'SERVICE_...
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seznam/shelter
shelter/commands/runserver.py
RunServer.init_tornado_workers
def init_tornado_workers(self): """ Prepare worker instances for all Tornado applications. Return :class:`list` of the :class:`ProcessWrapper` instances. """ workers = [] for tornado_app in get_tornado_apps(self.context, debug=False): interface = tornado_app....
python
def init_tornado_workers(self): """ Prepare worker instances for all Tornado applications. Return :class:`list` of the :class:`ProcessWrapper` instances. """ workers = [] for tornado_app in get_tornado_apps(self.context, debug=False): interface = tornado_app....
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seznam/shelter
shelter/commands/runserver.py
RunServer.start_processes
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python
def start_processes(self, max_restarts=-1): """ Start processes and check their status. When some process crashes, start it again. *max_restarts* is maximum amount of the restarts across all processes. *processes* is a :class:`list` of the :class:`ProcessWrapper` instances. ...
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seznam/shelter
shelter/commands/runserver.py
RunServer.command
def command(self): """ **runserver** command implementation. """ setproctitle.setproctitle( "{:s}: master process '{:s}'".format( self.context.config.name, " ".join(sys.argv) )) # Init and start processes try: self.star...
python
def command(self): """ **runserver** command implementation. """ setproctitle.setproctitle( "{:s}: master process '{:s}'".format( self.context.config.name, " ".join(sys.argv) )) # Init and start processes try: self.star...
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fhcrc/taxtastic
taxtastic/lonely.py
taxtable_to_tree
def taxtable_to_tree(handle): """Read a CSV taxonomy from *handle* into a Tree.""" c = csv.reader(handle, quoting=csv.QUOTE_NONNUMERIC) header = next(c) rootdict = dict(list(zip(header, next(c)))) t = Tree(rootdict['tax_id'], rank=rootdict[ 'rank'], tax_name=rootdict['tax_name']) fo...
python
def taxtable_to_tree(handle): """Read a CSV taxonomy from *handle* into a Tree.""" c = csv.reader(handle, quoting=csv.QUOTE_NONNUMERIC) header = next(c) rootdict = dict(list(zip(header, next(c)))) t = Tree(rootdict['tax_id'], rank=rootdict[ 'rank'], tax_name=rootdict['tax_name']) fo...
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fhcrc/taxtastic
taxtastic/lonely.py
lonely_company
def lonely_company(taxonomy, tax_ids): """Return a set of species tax_ids which will makes those in *tax_ids* not lonely. The returned species will probably themselves be lonely. """ return [taxonomy.species_below(taxonomy.sibling_of(t)) for t in tax_ids]
python
def lonely_company(taxonomy, tax_ids): """Return a set of species tax_ids which will makes those in *tax_ids* not lonely. The returned species will probably themselves be lonely. """ return [taxonomy.species_below(taxonomy.sibling_of(t)) for t in tax_ids]
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fhcrc/taxtastic
taxtastic/lonely.py
solid_company
def solid_company(taxonomy, tax_ids): """Return a set of non-lonely species tax_ids that will make those in *tax_ids* not lonely.""" res = [] for t in tax_ids: res.extend(taxonomy.nary_subtree(taxonomy.sibling_of(t), 2) or []) return res
python
def solid_company(taxonomy, tax_ids): """Return a set of non-lonely species tax_ids that will make those in *tax_ids* not lonely.""" res = [] for t in tax_ids: res.extend(taxonomy.nary_subtree(taxonomy.sibling_of(t), 2) or []) return res
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amicks/Speculator
speculator/features/OBV.py
OBV.eval_algorithm
def eval_algorithm(curr, prev): """ Evaluates OBV Args: curr: Dict of current volume and close prev: Dict of previous OBV and close Returns: Float of OBV """ if curr['close'] > prev['close']: v = curr['volume'] elif curr['...
python
def eval_algorithm(curr, prev): """ Evaluates OBV Args: curr: Dict of current volume and close prev: Dict of previous OBV and close Returns: Float of OBV """ if curr['close'] > prev['close']: v = curr['volume'] elif curr['...
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amicks/Speculator
speculator/features/OBV.py
OBV.eval_from_json
def eval_from_json(json): """ Evaluates OBV from JSON (typically Poloniex API response) Args: json: List of dates where each entry is a dict of raw market data. Returns: Float of OBV """ closes = poloniex.get_attribute(json, 'close') volumes = po...
python
def eval_from_json(json): """ Evaluates OBV from JSON (typically Poloniex API response) Args: json: List of dates where each entry is a dict of raw market data. Returns: Float of OBV """ closes = poloniex.get_attribute(json, 'close') volumes = po...
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fhcrc/taxtastic
taxtastic/refpkg.py
scratch_file
def scratch_file(unlink=True, **kwargs): """Create a temporary file and return its name. Additional arguments are passed to :class:`tempfile.NamedTemporaryFile` At the start of the with block a secure, temporary file is created and its name returned. At the end of the with block it is deleted. ...
python
def scratch_file(unlink=True, **kwargs): """Create a temporary file and return its name. Additional arguments are passed to :class:`tempfile.NamedTemporaryFile` At the start of the with block a secure, temporary file is created and its name returned. At the end of the with block it is deleted. ...
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fhcrc/taxtastic
taxtastic/refpkg.py
Refpkg.open
def open(self, name, *mode): """ Return an open file object for a file in the reference package. """ return self.file_factory(self.file_path(name), *mode)
python
def open(self, name, *mode): """ Return an open file object for a file in the reference package. """ return self.file_factory(self.file_path(name), *mode)
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fhcrc/taxtastic
taxtastic/refpkg.py
Refpkg.open_resource
def open_resource(self, resource, *mode): """ Return an open file object for a particular named resource in this reference package. """ return self.open(self.resource_name(resource), *mode)
python
def open_resource(self, resource, *mode): """ Return an open file object for a particular named resource in this reference package. """ return self.open(self.resource_name(resource), *mode)
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fhcrc/taxtastic
taxtastic/refpkg.py
Refpkg.resource_name
def resource_name(self, resource): """ Return the name of the file within the reference package for a particular named resource. """ if not(resource in self.contents['files']): raise ValueError("No such resource %r in refpkg" % (resource,)) return self.content...
python
def resource_name(self, resource): """ Return the name of the file within the reference package for a particular named resource. """ if not(resource in self.contents['files']): raise ValueError("No such resource %r in refpkg" % (resource,)) return self.content...
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train
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fhcrc/taxtastic
taxtastic/refpkg.py
Refpkg.resource_md5
def resource_md5(self, resource): """Return the stored MD5 sum for a particular named resource.""" if not(resource in self.contents['md5']): raise ValueError("No such resource %r in refpkg" % (resource,)) return self.contents['md5'][resource]
python
def resource_md5(self, resource): """Return the stored MD5 sum for a particular named resource.""" if not(resource in self.contents['md5']): raise ValueError("No such resource %r in refpkg" % (resource,)) return self.contents['md5'][resource]
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fhcrc/taxtastic
taxtastic/refpkg.py
Refpkg._set_defaults
def _set_defaults(self): """ Set some default values in the manifest. This method should be called after loading from disk, but before checking the integrity of the reference package. """ self.contents.setdefault('log', []) self.contents.setdefault('rollback', No...
python
def _set_defaults(self): """ Set some default values in the manifest. This method should be called after loading from disk, but before checking the integrity of the reference package. """ self.contents.setdefault('log', []) self.contents.setdefault('rollback', No...
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Set some default values in the manifest. This method should be called after loading from disk, but before checking the integrity of the reference package.
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https://github.com/fhcrc/taxtastic/blob/4e874b7f2cc146178828bfba386314f8c342722b/taxtastic/refpkg.py#L277-L286
fhcrc/taxtastic
taxtastic/refpkg.py
Refpkg._sync_to_disk
def _sync_to_disk(self): """Write any changes made on Refpkg to disk. Other methods of Refpkg that alter the contents of the package will call this method themselves. Generally you should never have to call it by hand. The only exception would be if another program has changed...
python
def _sync_to_disk(self): """Write any changes made on Refpkg to disk. Other methods of Refpkg that alter the contents of the package will call this method themselves. Generally you should never have to call it by hand. The only exception would be if another program has changed...
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https://github.com/fhcrc/taxtastic/blob/4e874b7f2cc146178828bfba386314f8c342722b/taxtastic/refpkg.py#L288-L300
fhcrc/taxtastic
taxtastic/refpkg.py
Refpkg._sync_from_disk
def _sync_from_disk(self): """Read any changes made on disk to this Refpkg. This is necessary if other programs are making changes to the Refpkg on disk and your program must be synchronized to them. """ try: fobj = self.open_manifest('r') except IOError as ...
python
def _sync_from_disk(self): """Read any changes made on disk to this Refpkg. This is necessary if other programs are making changes to the Refpkg on disk and your program must be synchronized to them. """ try: fobj = self.open_manifest('r') except IOError as ...
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https://github.com/fhcrc/taxtastic/blob/4e874b7f2cc146178828bfba386314f8c342722b/taxtastic/refpkg.py#L302-L323
fhcrc/taxtastic
taxtastic/refpkg.py
Refpkg._add_file
def _add_file(self, key, path): """Copy a file into the reference package.""" filename = os.path.basename(path) base, ext = os.path.splitext(filename) if os.path.exists(self.file_path(filename)): with tempfile.NamedTemporaryFile( dir=self.path, prefix=base...
python
def _add_file(self, key, path): """Copy a file into the reference package.""" filename = os.path.basename(path) base, ext = os.path.splitext(filename) if os.path.exists(self.file_path(filename)): with tempfile.NamedTemporaryFile( dir=self.path, prefix=base...
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Copy a file into the reference package.
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train
https://github.com/fhcrc/taxtastic/blob/4e874b7f2cc146178828bfba386314f8c342722b/taxtastic/refpkg.py#L325-L334
fhcrc/taxtastic
taxtastic/refpkg.py
Refpkg.is_invalid
def is_invalid(self): """Check if this RefPkg is invalid. Valid means that it contains a properly named manifest, and each of the files described in the manifest exists and has the proper MD5 hashsum. If the Refpkg is valid, is_invalid returns False. Otherwise it retur...
python
def is_invalid(self): """Check if this RefPkg is invalid. Valid means that it contains a properly named manifest, and each of the files described in the manifest exists and has the proper MD5 hashsum. If the Refpkg is valid, is_invalid returns False. Otherwise it retur...
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