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AtteqCom/zsl
src/zsl/utils/xml_helper.py
required_items
def required_items(element, children, attributes): """Check an xml element to include given attributes and children. :param element: ElementTree element :param children: list of XPaths to check :param attributes: list of attributes names to check :raises NotValidXmlException: if some argument is mi...
python
def required_items(element, children, attributes): """Check an xml element to include given attributes and children. :param element: ElementTree element :param children: list of XPaths to check :param attributes: list of attributes names to check :raises NotValidXmlException: if some argument is mi...
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Check an xml element to include given attributes and children. :param element: ElementTree element :param children: list of XPaths to check :param attributes: list of attributes names to check :raises NotValidXmlException: if some argument is missing :raises NotValidXmlException: if some child is m...
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train
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AtteqCom/zsl
src/zsl/utils/xml_helper.py
attrib_to_dict
def attrib_to_dict(element, *args, **kwargs): """For an ElementTree ``element`` extract specified attributes. If an attribute does not exists, its value will be ``None``. attrib_to_dict(element, 'attr_a', 'attr_b') -> {'attr_a': 'value', 'attr_a': 'value'} Mapping between xml attributes and dictionary...
python
def attrib_to_dict(element, *args, **kwargs): """For an ElementTree ``element`` extract specified attributes. If an attribute does not exists, its value will be ``None``. attrib_to_dict(element, 'attr_a', 'attr_b') -> {'attr_a': 'value', 'attr_a': 'value'} Mapping between xml attributes and dictionary...
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For an ElementTree ``element`` extract specified attributes. If an attribute does not exists, its value will be ``None``. attrib_to_dict(element, 'attr_a', 'attr_b') -> {'attr_a': 'value', 'attr_a': 'value'} Mapping between xml attributes and dictionary keys is done with kwargs. attrib_to_dict(element...
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train
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AtteqCom/zsl
src/zsl/utils/xml_helper.py
get_xml_root
def get_xml_root(xml_path): """Load and parse an xml by given xml_path and return its root. :param xml_path: URL to a xml file :type xml_path: str :return: xml root """ r = requests.get(xml_path) root = ET.fromstring(r.content) return root
python
def get_xml_root(xml_path): """Load and parse an xml by given xml_path and return its root. :param xml_path: URL to a xml file :type xml_path: str :return: xml root """ r = requests.get(xml_path) root = ET.fromstring(r.content) return root
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AtteqCom/zsl
src/zsl/utils/xml_helper.py
element_to_int
def element_to_int(element, attribute=None): """Convert ``element`` object to int. If attribute is not given, convert ``element.text``. :param element: ElementTree element :param attribute: attribute name :type attribute: str :returns: integer :rtype: int """ if attribute is not None: ...
python
def element_to_int(element, attribute=None): """Convert ``element`` object to int. If attribute is not given, convert ``element.text``. :param element: ElementTree element :param attribute: attribute name :type attribute: str :returns: integer :rtype: int """ if attribute is not None: ...
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train
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AtteqCom/zsl
src/zsl/utils/xml_helper.py
create_el
def create_el(name, text=None, attrib=None): """Create element with given attributes and set element.text property to given text value (if text is not None) :param name: element name :type name: str :param text: text node value :type text: str :param attrib: attributes :type attrib: dic...
python
def create_el(name, text=None, attrib=None): """Create element with given attributes and set element.text property to given text value (if text is not None) :param name: element name :type name: str :param text: text node value :type text: str :param attrib: attributes :type attrib: dic...
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Create element with given attributes and set element.text property to given text value (if text is not None) :param name: element name :type name: str :param text: text node value :type text: str :param attrib: attributes :type attrib: dict :returns: xml element :rtype: Element
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AtteqCom/zsl
src/zsl/application/containers/container.py
IoCContainer.modules
def modules(cls): """Collect all the public class attributes. All class attributes should be a DI modules, this method collects them and returns as a list. :return: list of DI modules :rtype: list[Union[Module, Callable]] """ members = inspect.getmembers(cls, la...
python
def modules(cls): """Collect all the public class attributes. All class attributes should be a DI modules, this method collects them and returns as a list. :return: list of DI modules :rtype: list[Union[Module, Callable]] """ members = inspect.getmembers(cls, la...
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briney/abutils
abutils/core/pair.py
get_pairs
def get_pairs(db, collection, experiment=None, subject=None, group=None, name='seq_id', delim=None, delim_occurance=1, pairs_only=False, h_selection_func=None, l_selection_func=None): ''' Gets sequences and assigns them to the appropriate mAb pair, based on the sequence name. Inputs: ::db:: is a p...
python
def get_pairs(db, collection, experiment=None, subject=None, group=None, name='seq_id', delim=None, delim_occurance=1, pairs_only=False, h_selection_func=None, l_selection_func=None): ''' Gets sequences and assigns them to the appropriate mAb pair, based on the sequence name. Inputs: ::db:: is a p...
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Gets sequences and assigns them to the appropriate mAb pair, based on the sequence name. Inputs: ::db:: is a pymongo database connection object ::collection:: is the collection name, as a string If ::subject:: is provided, only sequences with a 'subject' field matching ::subject:: will be incl...
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briney/abutils
abutils/core/pair.py
assign_pairs
def assign_pairs(seqs, name='seq_id', delim=None, delim_occurance=1, pairs_only=False, h_selection_func=None, l_selection_func=None): ''' Assigns sequences to the appropriate mAb pair, based on the sequence name. Inputs: ::seqs:: is a list of dicts, of the format returned by querying ...
python
def assign_pairs(seqs, name='seq_id', delim=None, delim_occurance=1, pairs_only=False, h_selection_func=None, l_selection_func=None): ''' Assigns sequences to the appropriate mAb pair, based on the sequence name. Inputs: ::seqs:: is a list of dicts, of the format returned by querying ...
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Assigns sequences to the appropriate mAb pair, based on the sequence name. Inputs: ::seqs:: is a list of dicts, of the format returned by querying a MongoDB containing Abstar output. ::name:: is the dict key of the field to be used to group the sequences into pairs. Default is 'seq_id' ...
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briney/abutils
abutils/core/pair.py
deduplicate
def deduplicate(pairs, aa=False, ignore_primer_regions=False): ''' Removes duplicate sequences from a list of Pair objects. If a Pair has heavy and light chains, both chains must identically match heavy and light chains from another Pair to be considered a duplicate. If a Pair has only a single chain, ...
python
def deduplicate(pairs, aa=False, ignore_primer_regions=False): ''' Removes duplicate sequences from a list of Pair objects. If a Pair has heavy and light chains, both chains must identically match heavy and light chains from another Pair to be considered a duplicate. If a Pair has only a single chain, ...
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briney/abutils
abutils/core/pair.py
Pair._refine_v
def _refine_v(seq, species): ''' Completes the 5' end of a a truncated sequence with germline nucleotides. Input is a MongoDB dict (seq) and the species. ''' vgerm = germlines.get_germline(seq['v_gene']['full'], species) aln = global_alignment(seq['vdj_nt'], vgerm) ...
python
def _refine_v(seq, species): ''' Completes the 5' end of a a truncated sequence with germline nucleotides. Input is a MongoDB dict (seq) and the species. ''' vgerm = germlines.get_germline(seq['v_gene']['full'], species) aln = global_alignment(seq['vdj_nt'], vgerm) ...
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briney/abutils
abutils/core/pair.py
Pair._refine_j
def _refine_j(seq, species): ''' Completes the 3' end of a a truncated sequence with germline nucleotides. Input is a MongoDB dict (seq) and the species. ''' jgerm = germlines.get_germline(seq['j_gene']['full'], species) aln = global_alignment(seq['vdj_nt'], jgerm) ...
python
def _refine_j(seq, species): ''' Completes the 3' end of a a truncated sequence with germline nucleotides. Input is a MongoDB dict (seq) and the species. ''' jgerm = germlines.get_germline(seq['j_gene']['full'], species) aln = global_alignment(seq['vdj_nt'], jgerm) ...
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briney/abutils
abutils/core/pair.py
Pair._retranslate
def _retranslate(seq): ''' Retranslates a nucleotide sequence following refinement. Input is a Pair sequence (basically a dict of MongoDB output). ''' if len(seq['vdj_nt']) % 3 != 0: trunc = len(seq['vdj_nt']) % 3 seq['vdj_nt'] = seq['vdj_nt'][:-trunc] ...
python
def _retranslate(seq): ''' Retranslates a nucleotide sequence following refinement. Input is a Pair sequence (basically a dict of MongoDB output). ''' if len(seq['vdj_nt']) % 3 != 0: trunc = len(seq['vdj_nt']) % 3 seq['vdj_nt'] = seq['vdj_nt'][:-trunc] ...
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briney/abutils
abutils/core/pair.py
Pair.fasta
def fasta(self, key='vdj_nt', append_chain=True): ''' Returns the sequence pair as a fasta string. If the Pair object contains both heavy and light chain sequences, both will be returned as a single string. By default, the fasta string contains the 'vdj_nt' sequence for each chain. To c...
python
def fasta(self, key='vdj_nt', append_chain=True): ''' Returns the sequence pair as a fasta string. If the Pair object contains both heavy and light chain sequences, both will be returned as a single string. By default, the fasta string contains the 'vdj_nt' sequence for each chain. To c...
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Returns the sequence pair as a fasta string. If the Pair object contains both heavy and light chain sequences, both will be returned as a single string. By default, the fasta string contains the 'vdj_nt' sequence for each chain. To change, use the <key> option to select an alternate sequence. ...
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briney/abutils
abutils/utils/color.py
cmap_from_color
def cmap_from_color(color, dark=False): ''' Generates a matplotlib colormap from a single color. Colormap will be built, by default, from white to ``color``. Args: color: Can be one of several things: 1. Hex code 2. HTML color name 3. RGB tuple da...
python
def cmap_from_color(color, dark=False): ''' Generates a matplotlib colormap from a single color. Colormap will be built, by default, from white to ``color``. Args: color: Can be one of several things: 1. Hex code 2. HTML color name 3. RGB tuple da...
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Generates a matplotlib colormap from a single color. Colormap will be built, by default, from white to ``color``. Args: color: Can be one of several things: 1. Hex code 2. HTML color name 3. RGB tuple dark (bool): If ``True``, colormap will be built from ...
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briney/abutils
abutils/utils/color.py
truncate_colormap
def truncate_colormap(cmap, minval=0.0, maxval=1.0, n=256): """ Truncates a colormap, such that the new colormap consists of ``cmap[minval:maxval]``. If maxval is larger than minval, the truncated colormap will be reversed. Args: cmap (colormap): Colormap to be truncated minval (float)...
python
def truncate_colormap(cmap, minval=0.0, maxval=1.0, n=256): """ Truncates a colormap, such that the new colormap consists of ``cmap[minval:maxval]``. If maxval is larger than minval, the truncated colormap will be reversed. Args: cmap (colormap): Colormap to be truncated minval (float)...
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Truncates a colormap, such that the new colormap consists of ``cmap[minval:maxval]``. If maxval is larger than minval, the truncated colormap will be reversed. Args: cmap (colormap): Colormap to be truncated minval (float): Lower bound. Should be a float betwee 0 and 1. maxval (float): U...
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briney/abutils
abutils/utils/color.py
stack_colormap
def stack_colormap(lower, upper, n=256): """ Stacks two colormaps (``lower`` and ``upper``) such that low half -> ``lower`` colors, high half -> ``upper`` colors Args: lower (colormap): colormap for the lower half of the stacked colormap. upper (colormap): colormap for the upper half of the...
python
def stack_colormap(lower, upper, n=256): """ Stacks two colormaps (``lower`` and ``upper``) such that low half -> ``lower`` colors, high half -> ``upper`` colors Args: lower (colormap): colormap for the lower half of the stacked colormap. upper (colormap): colormap for the upper half of the...
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AtteqCom/zsl
src/zsl/utils/warnings.py
deprecated
def deprecated(func): """This is a decorator which can be used to mark functions as deprecated. It will result in a warning being emitted when the function is used.""" @functools.wraps(func) def decorated(*args, **kwargs): warnings.warn_explicit( "Call to deprecated function {}....
python
def deprecated(func): """This is a decorator which can be used to mark functions as deprecated. It will result in a warning being emitted when the function is used.""" @functools.wraps(func) def decorated(*args, **kwargs): warnings.warn_explicit( "Call to deprecated function {}....
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AtteqCom/zsl
src/zsl/db/helpers/nested.py
nested_model
def nested_model(model, nested_fields): """ Return :class:`zsl.db.model.app_model import AppModel` with the nested models attached. ``nested_fields`` can be a simple list as model fields, or it can be a tree definition in dict with leafs as keys with ``None`` value """ # type...
python
def nested_model(model, nested_fields): """ Return :class:`zsl.db.model.app_model import AppModel` with the nested models attached. ``nested_fields`` can be a simple list as model fields, or it can be a tree definition in dict with leafs as keys with ``None`` value """ # type...
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datacamp/protowhat
protowhat/checks/check_funcs.py
check_node
def check_node( state, name, index=0, missing_msg="Check the {ast_path}. Could not find the {index}{node_name}.", priority=None, ): """Select a node from abstract syntax tree (AST), using its name and index position. Args: state: State instance describing student and solution code. ...
python
def check_node( state, name, index=0, missing_msg="Check the {ast_path}. Could not find the {index}{node_name}.", priority=None, ): """Select a node from abstract syntax tree (AST), using its name and index position. Args: state: State instance describing student and solution code. ...
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train
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datacamp/protowhat
protowhat/checks/check_funcs.py
check_edge
def check_edge( state, name, index=0, missing_msg="Check the {ast_path}. Could not find the {index}{field_name}.", ): """Select an attribute from an abstract syntax tree (AST) node, using the attribute name. Args: state: State instance describing student and solution code. Can be omitte...
python
def check_edge( state, name, index=0, missing_msg="Check the {ast_path}. Could not find the {index}{field_name}.", ): """Select an attribute from an abstract syntax tree (AST) node, using the attribute name. Args: state: State instance describing student and solution code. Can be omitte...
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train
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datacamp/protowhat
protowhat/checks/check_funcs.py
has_code
def has_code( state, text, incorrect_msg="Check the {ast_path}. The checker expected to find {text}.", fixed=False, ): """Test whether the student code contains text. Args: state: State instance describing student and solution code. Can be omitted if used with Ex(). text : text ...
python
def has_code( state, text, incorrect_msg="Check the {ast_path}. The checker expected to find {text}.", fixed=False, ): """Test whether the student code contains text. Args: state: State instance describing student and solution code. Can be omitted if used with Ex(). text : text ...
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train
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datacamp/protowhat
protowhat/checks/check_funcs.py
has_equal_ast
def has_equal_ast( state, incorrect_msg="Check the {ast_path}. {extra}", sql=None, start=["expression", "subquery", "sql_script"][0], exact=None, ): """Test whether the student and solution code have identical AST representations Args: state: State instance describing student and so...
python
def has_equal_ast( state, incorrect_msg="Check the {ast_path}. {extra}", sql=None, start=["expression", "subquery", "sql_script"][0], exact=None, ): """Test whether the student and solution code have identical AST representations Args: state: State instance describing student and so...
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Test whether the student and solution code have identical AST representations Args: state: State instance describing student and solution code. Can be omitted if used with Ex(). incorrect_msg: feedback message if student and solution ASTs don't match sql : optional code to use instead of t...
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AtteqCom/zsl
src/zsl/utils/cache_helper.py
cache_model
def cache_model(key_params, timeout='default'): """ Caching decorator for app models in task.perform """ def decorator_fn(fn): return CacheModelDecorator().decorate(key_params, timeout, fn) return decorator_fn
python
def cache_model(key_params, timeout='default'): """ Caching decorator for app models in task.perform """ def decorator_fn(fn): return CacheModelDecorator().decorate(key_params, timeout, fn) return decorator_fn
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AtteqCom/zsl
src/zsl/utils/cache_helper.py
cache_page
def cache_page(key_params, timeout='default'): """ Cache a page (slice) of a list of AppModels """ def decorator_fn(fn): d = CachePageDecorator() return d.decorate(key_params, timeout, fn) return decorator_fn
python
def cache_page(key_params, timeout='default'): """ Cache a page (slice) of a list of AppModels """ def decorator_fn(fn): d = CachePageDecorator() return d.decorate(key_params, timeout, fn) return decorator_fn
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AtteqCom/zsl
src/zsl/utils/cache_helper.py
create_key_for_data
def create_key_for_data(prefix, data, key_params): """ From ``data`` params in task create corresponding key with help of ``key_params`` (defined in decorator) """ d = data.get_data() values = [] for k in key_params: if k in d and type(d[k]) is list: values.append("{0}:{1}".f...
python
def create_key_for_data(prefix, data, key_params): """ From ``data`` params in task create corresponding key with help of ``key_params`` (defined in decorator) """ d = data.get_data() values = [] for k in key_params: if k in d and type(d[k]) is list: values.append("{0}:{1}".f...
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opencivicdata/pupa
pupa/importers/base.py
omnihash
def omnihash(obj): """ recursively hash unhashable objects """ if isinstance(obj, set): return hash(frozenset(omnihash(e) for e in obj)) elif isinstance(obj, (tuple, list)): return hash(tuple(omnihash(e) for e in obj)) elif isinstance(obj, dict): return hash(frozenset((k, omnihas...
python
def omnihash(obj): """ recursively hash unhashable objects """ if isinstance(obj, set): return hash(frozenset(omnihash(e) for e in obj)) elif isinstance(obj, (tuple, list)): return hash(tuple(omnihash(e) for e in obj)) elif isinstance(obj, dict): return hash(frozenset((k, omnihas...
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opencivicdata/pupa
pupa/importers/base.py
items_differ
def items_differ(jsonitems, dbitems, subfield_dict): """ check whether or not jsonitems and dbitems differ """ # short circuit common cases if len(jsonitems) == len(dbitems) == 0: # both are empty return False elif len(jsonitems) != len(dbitems): # if lengths differ, they're def...
python
def items_differ(jsonitems, dbitems, subfield_dict): """ check whether or not jsonitems and dbitems differ """ # short circuit common cases if len(jsonitems) == len(dbitems) == 0: # both are empty return False elif len(jsonitems) != len(dbitems): # if lengths differ, they're def...
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opencivicdata/pupa
pupa/importers/base.py
BaseImporter.resolve_json_id
def resolve_json_id(self, json_id, allow_no_match=False): """ Given an id found in scraped JSON, return a DB id for the object. params: json_id: id from json allow_no_match: just return None if id can't be resolved returns: ...
python
def resolve_json_id(self, json_id, allow_no_match=False): """ Given an id found in scraped JSON, return a DB id for the object. params: json_id: id from json allow_no_match: just return None if id can't be resolved returns: ...
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opencivicdata/pupa
pupa/importers/base.py
BaseImporter.import_directory
def import_directory(self, datadir): """ import a JSON directory into the database """ def json_stream(): # load all json, mapped by json_id for fname in glob.glob(os.path.join(datadir, self._type + '_*.json')): with open(fname) as f: yield js...
python
def import_directory(self, datadir): """ import a JSON directory into the database """ def json_stream(): # load all json, mapped by json_id for fname in glob.glob(os.path.join(datadir, self._type + '_*.json')): with open(fname) as f: yield js...
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opencivicdata/pupa
pupa/importers/base.py
BaseImporter._prepare_imports
def _prepare_imports(self, dicts): """ filters the import stream to remove duplicates also serves as a good place to override if anything special has to be done to the order of the import stream (see OrganizationImporter) """ # hash(json): id seen_hashes = {} f...
python
def _prepare_imports(self, dicts): """ filters the import stream to remove duplicates also serves as a good place to override if anything special has to be done to the order of the import stream (see OrganizationImporter) """ # hash(json): id seen_hashes = {} f...
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opencivicdata/pupa
pupa/importers/base.py
BaseImporter.import_data
def import_data(self, data_items): """ import a bunch of dicts together """ # keep counts of all actions record = { 'insert': 0, 'update': 0, 'noop': 0, 'start': utcnow(), 'records': { 'insert': [], 'update': [], ...
python
def import_data(self, data_items): """ import a bunch of dicts together """ # keep counts of all actions record = { 'insert': 0, 'update': 0, 'noop': 0, 'start': utcnow(), 'records': { 'insert': [], 'update': [], ...
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opencivicdata/pupa
pupa/importers/base.py
BaseImporter.import_item
def import_item(self, data): """ function used by import_data """ what = 'noop' # remove the JSON _id (may still be there if called directly) data.pop('_id', None) # add fields/etc. data = self.apply_transformers(data) data = self.prepare_for_db(data) t...
python
def import_item(self, data): """ function used by import_data """ what = 'noop' # remove the JSON _id (may still be there if called directly) data.pop('_id', None) # add fields/etc. data = self.apply_transformers(data) data = self.prepare_for_db(data) t...
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function used by import_data
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opencivicdata/pupa
pupa/importers/base.py
BaseImporter._update_related
def _update_related(self, obj, related, subfield_dict): """ update DB objects related to a base object obj: a base object to create related related: dict mapping field names to lists of related objects subfield_list: where to get the next layer of s...
python
def _update_related(self, obj, related, subfield_dict): """ update DB objects related to a base object obj: a base object to create related related: dict mapping field names to lists of related objects subfield_list: where to get the next layer of s...
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opencivicdata/pupa
pupa/importers/base.py
BaseImporter._create_related
def _create_related(self, obj, related, subfield_dict): """ create DB objects related to a base object obj: a base object to create related related: dict mapping field names to lists of related objects subfield_list: where to get the next layer of s...
python
def _create_related(self, obj, related, subfield_dict): """ create DB objects related to a base object obj: a base object to create related related: dict mapping field names to lists of related objects subfield_list: where to get the next layer of s...
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opencivicdata/pupa
pupa/utils/topsort.py
Network.add_edge
def add_edge(self, fro, to): """ When doing topological sorting, the semantics of the edge mean that the depedency runs from the parent to the child - which is to say that the parent is required to be sorted *before* the child. [ FROM ] ------> [ TO ] Committee...
python
def add_edge(self, fro, to): """ When doing topological sorting, the semantics of the edge mean that the depedency runs from the parent to the child - which is to say that the parent is required to be sorted *before* the child. [ FROM ] ------> [ TO ] Committee...
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opencivicdata/pupa
pupa/utils/topsort.py
Network.leaf_nodes
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python
def leaf_nodes(self): """ Return an interable of nodes with no edges pointing at them. This is helpful to find all nodes without dependencies. """ # Now contains all nodes that contain dependencies. deps = {item for sublist in self.edges.values() for item in sublist} ...
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opencivicdata/pupa
pupa/utils/topsort.py
Network.prune_node
def prune_node(self, node, remove_backrefs=False): """ remove node `node` from the network (including any edges that may have been pointing at `node`). """ if not remove_backrefs: for fro, connections in self.edges.items(): if node in self.edges[fro]: ...
python
def prune_node(self, node, remove_backrefs=False): """ remove node `node` from the network (including any edges that may have been pointing at `node`). """ if not remove_backrefs: for fro, connections in self.edges.items(): if node in self.edges[fro]: ...
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opencivicdata/pupa
pupa/utils/topsort.py
Network.sort
def sort(self): """ Return an iterable of nodes, toplogically sorted to correctly import dependencies before leaf nodes. """ while self.nodes: iterated = False for node in self.leaf_nodes(): iterated = True self.prune_node(n...
python
def sort(self): """ Return an iterable of nodes, toplogically sorted to correctly import dependencies before leaf nodes. """ while self.nodes: iterated = False for node in self.leaf_nodes(): iterated = True self.prune_node(n...
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opencivicdata/pupa
pupa/utils/topsort.py
Network.dot
def dot(self): """ Return a buffer that represents something dot(1) can render. """ buff = "digraph graphname {" for fro in self.edges: for to in self.edges[fro]: buff += "%s -> %s;" % (fro, to) buff += "}" return buff
python
def dot(self): """ Return a buffer that represents something dot(1) can render. """ buff = "digraph graphname {" for fro in self.edges: for to in self.edges[fro]: buff += "%s -> %s;" % (fro, to) buff += "}" return buff
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opencivicdata/pupa
pupa/utils/topsort.py
Network.cycles
def cycles(self): """ Fairly expensive cycle detection algorithm. This method will return the shortest unique cycles that were detected. Debug usage may look something like: print("The following cycles were found:") for cycle in network.cycles(): print(" ...
python
def cycles(self): """ Fairly expensive cycle detection algorithm. This method will return the shortest unique cycles that were detected. Debug usage may look something like: print("The following cycles were found:") for cycle in network.cycles(): print(" ...
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opencivicdata/pupa
pupa/scrape/popolo.py
pseudo_organization
def pseudo_organization(organization, classification, default=None): """ helper for setting an appropriate ID for organizations """ if organization and classification: raise ScrapeValueError('cannot specify both classification and organization') elif classification: return _make_pseudo_id(cl...
python
def pseudo_organization(organization, classification, default=None): """ helper for setting an appropriate ID for organizations """ if organization and classification: raise ScrapeValueError('cannot specify both classification and organization') elif classification: return _make_pseudo_id(cl...
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opencivicdata/pupa
pupa/scrape/popolo.py
Person.add_membership
def add_membership(self, name_or_org, role='member', **kwargs): """ add a membership in an organization and return the membership object in case there are more details to add """ if isinstance(name_or_org, Organization): membership = Membership(person_id=self....
python
def add_membership(self, name_or_org, role='member', **kwargs): """ add a membership in an organization and return the membership object in case there are more details to add """ if isinstance(name_or_org, Organization): membership = Membership(person_id=self....
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opencivicdata/pupa
pupa/scrape/base.py
Scraper.save_object
def save_object(self, obj): """ Save object to disk as JSON. Generally shouldn't be called directly. """ obj.pre_save(self.jurisdiction.jurisdiction_id) filename = '{0}_{1}.json'.format(obj._type, obj._id).replace('/', '-') self.info('save %s %s as %s',...
python
def save_object(self, obj): """ Save object to disk as JSON. Generally shouldn't be called directly. """ obj.pre_save(self.jurisdiction.jurisdiction_id) filename = '{0}_{1}.json'.format(obj._type, obj._id).replace('/', '-') self.info('save %s %s as %s',...
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Save object to disk as JSON. Generally shouldn't be called directly.
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opencivicdata/pupa
pupa/scrape/base.py
BaseModel.validate
def validate(self, schema=None): """ Validate that we have a valid object. On error, this will raise a `ScrapeValueError` This also expects that the schemas assume that omitting required in the schema asserts the field is optional, not required. This is due to upstream ...
python
def validate(self, schema=None): """ Validate that we have a valid object. On error, this will raise a `ScrapeValueError` This also expects that the schemas assume that omitting required in the schema asserts the field is optional, not required. This is due to upstream ...
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opencivicdata/pupa
pupa/scrape/base.py
SourceMixin.add_source
def add_source(self, url, *, note=''): """ Add a source URL from which data was collected """ new = {'url': url, 'note': note} self.sources.append(new)
python
def add_source(self, url, *, note=''): """ Add a source URL from which data was collected """ new = {'url': url, 'note': note} self.sources.append(new)
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molpopgen/fwdpy11
fwdpy11/_evolve_genomes.py
evolve_genomes
def evolve_genomes(rng, pop, params, recorder=None): """ Evolve a population without tree sequence recordings. In other words, complete genomes must be simulated and tracked. :param rng: random number generator :type rng: :class:`fwdpy11.GSLrng` :param pop: A population :type pop: :class:`...
python
def evolve_genomes(rng, pop, params, recorder=None): """ Evolve a population without tree sequence recordings. In other words, complete genomes must be simulated and tracked. :param rng: random number generator :type rng: :class:`fwdpy11.GSLrng` :param pop: A population :type pop: :class:`...
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molpopgen/fwdpy11
fwdpy11/_tables_to_tskit.py
_initializeIndividualTable
def _initializeIndividualTable(pop, tc): """ Returns node ID -> individual map """ # First, alive individuals: individal_nodes = {} for i in range(pop.N): individal_nodes[2*i] = i individal_nodes[2*i+1] = i metadata_strings = _generate_individual_metadata(pop.diploid_metadata...
python
def _initializeIndividualTable(pop, tc): """ Returns node ID -> individual map """ # First, alive individuals: individal_nodes = {} for i in range(pop.N): individal_nodes[2*i] = i individal_nodes[2*i+1] = i metadata_strings = _generate_individual_metadata(pop.diploid_metadata...
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molpopgen/fwdpy11
fwdpy11/_tables_to_tskit.py
dump_tables_to_tskit
def dump_tables_to_tskit(pop): """ Converts fwdpy11.TableCollection to an tskit.TreeSequence """ node_view = np.array(pop.tables.nodes, copy=True) node_view['time'] -= node_view['time'].max() node_view['time'][np.where(node_view['time'] != 0.0)[0]] *= -1.0 edge_view = np.array(pop.tables...
python
def dump_tables_to_tskit(pop): """ Converts fwdpy11.TableCollection to an tskit.TreeSequence """ node_view = np.array(pop.tables.nodes, copy=True) node_view['time'] -= node_view['time'].max() node_view['time'][np.where(node_view['time'] != 0.0)[0]] *= -1.0 edge_view = np.array(pop.tables...
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molpopgen/fwdpy11
fwdpy11/ezparams.py
mslike
def mslike(pop, **kwargs): """ Function to establish default parameters for a single-locus simulation for standard pop-gen modeling scenarios. :params pop: An instance of :class:`fwdpy11.DiploidPopulation` :params kwargs: Keyword arguments. """ import fwdpy11 if isinstance(pop, fwdp...
python
def mslike(pop, **kwargs): """ Function to establish default parameters for a single-locus simulation for standard pop-gen modeling scenarios. :params pop: An instance of :class:`fwdpy11.DiploidPopulation` :params kwargs: Keyword arguments. """ import fwdpy11 if isinstance(pop, fwdp...
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Function to establish default parameters for a single-locus simulation for standard pop-gen modeling scenarios. :params pop: An instance of :class:`fwdpy11.DiploidPopulation` :params kwargs: Keyword arguments.
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opencivicdata/pupa
pupa/importers/people.py
PersonImporter.limit_spec
def limit_spec(self, spec): """ Whenever we do a Pseudo ID lookup from the database, we need to limit based on the memberships -> organization -> jurisdiction, so we scope the resolution. """ if list(spec.keys()) == ['name']: # if we're just resolving on name,...
python
def limit_spec(self, spec): """ Whenever we do a Pseudo ID lookup from the database, we need to limit based on the memberships -> organization -> jurisdiction, so we scope the resolution. """ if list(spec.keys()) == ['name']: # if we're just resolving on name,...
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molpopgen/fwdpy11
fwdpy11/_model_params.py
ModelParams.validate
def validate(self): """ Error check model params. :raises TypeError: Throws TypeError if validation fails. """ if self.nregions is None: raise TypeError("neutral regions cannot be None") if self.sregions is None: raise TypeError("selected regions...
python
def validate(self): """ Error check model params. :raises TypeError: Throws TypeError if validation fails. """ if self.nregions is None: raise TypeError("neutral regions cannot be None") if self.sregions is None: raise TypeError("selected regions...
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opencivicdata/pupa
pupa/importers/organizations.py
OrganizationImporter._prepare_imports
def _prepare_imports(self, dicts): """ an override for prepare imports that sorts the imports by parent_id dependencies """ # all pseudo parent ids we've seen pseudo_ids = set() # pseudo matches pseudo_matches = {} # get prepared imports from parent prepared = di...
python
def _prepare_imports(self, dicts): """ an override for prepare imports that sorts the imports by parent_id dependencies """ # all pseudo parent ids we've seen pseudo_ids = set() # pseudo matches pseudo_matches = {} # get prepared imports from parent prepared = di...
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molpopgen/fwdpy11
fwdpy11/_evolvets.py
evolvets
def evolvets(rng, pop, params, simplification_interval, recorder=None, suppress_table_indexing=False, record_gvalue_matrix=False, stopping_criterion=None, track_mutation_counts=False, remove_extinct_variants=True): """ Evolve a population with tree sequence recording ...
python
def evolvets(rng, pop, params, simplification_interval, recorder=None, suppress_table_indexing=False, record_gvalue_matrix=False, stopping_criterion=None, track_mutation_counts=False, remove_extinct_variants=True): """ Evolve a population with tree sequence recording ...
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Evolve a population with tree sequence recording :param rng: random number generator :type rng: :class:`fwdpy11.GSLrng` :param pop: A population :type pop: :class:`fwdpy11.DiploidPopulation` :param params: simulation parameters :type params: :class:`fwdpy11.ModelParams` :param simplificatio...
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molpopgen/fwdpy11
fwdpy11/demography.py
exponential_size_change
def exponential_size_change(Nstart, Nstop, time): """ Generate a list of population sizes according to exponential size_change model :param Nstart: population size at onset of size change :param Nstop: Population size to reach at end of size change :param time: Time (in generations) to get from...
python
def exponential_size_change(Nstart, Nstop, time): """ Generate a list of population sizes according to exponential size_change model :param Nstart: population size at onset of size change :param Nstop: Population size to reach at end of size change :param time: Time (in generations) to get from...
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markdrago/pgsanity
pgsanity/sqlprep.py
split_sql
def split_sql(sql): """generate hunks of SQL that are between the bookends return: tuple of beginning bookend, closing bookend, and contents note: beginning & end of string are returned as None""" bookends = ("\n", ";", "--", "/*", "*/") last_bookend_found = None start = 0 while sta...
python
def split_sql(sql): """generate hunks of SQL that are between the bookends return: tuple of beginning bookend, closing bookend, and contents note: beginning & end of string are returned as None""" bookends = ("\n", ";", "--", "/*", "*/") last_bookend_found = None start = 0 while sta...
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markdrago/pgsanity
pgsanity/pgsanity.py
check_file
def check_file(filename=None, show_filename=False, add_semicolon=False): """ Check whether an input file is valid PostgreSQL. If no filename is passed, STDIN is checked. Returns a status code: 0 if the input is valid, 1 if invalid. """ # either work with sys.stdin or open the file if filena...
python
def check_file(filename=None, show_filename=False, add_semicolon=False): """ Check whether an input file is valid PostgreSQL. If no filename is passed, STDIN is checked. Returns a status code: 0 if the input is valid, 1 if invalid. """ # either work with sys.stdin or open the file if filena...
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train
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markdrago/pgsanity
pgsanity/pgsanity.py
check_string
def check_string(sql_string, add_semicolon=False): """ Check whether a string is valid PostgreSQL. Returns a boolean indicating validity and a message from ecpg, which will be an empty string if the input was valid, or a description of the problem otherwise. """ prepped_sql = sqlprep.prepare...
python
def check_string(sql_string, add_semicolon=False): """ Check whether a string is valid PostgreSQL. Returns a boolean indicating validity and a message from ecpg, which will be an empty string if the input was valid, or a description of the problem otherwise. """ prepped_sql = sqlprep.prepare...
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markdrago/pgsanity
pgsanity/ecpg.py
check_syntax
def check_syntax(string): """ Check syntax of a string of PostgreSQL-dialect SQL """ args = ["ecpg", "-o", "-", "-"] with open(os.devnull, "w") as devnull: try: proc = subprocess.Popen(args, shell=False, stdout=devnull, ...
python
def check_syntax(string): """ Check syntax of a string of PostgreSQL-dialect SQL """ args = ["ecpg", "-o", "-", "-"] with open(os.devnull, "w") as devnull: try: proc = subprocess.Popen(args, shell=False, stdout=devnull, ...
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train
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QualiSystems/vCenterShell
static_vm_package/VCenterAutoloadStaticVMDriver/app_discovery/vm_autoload_driver.py
DeployAppOrchestrationDriver.get_inventory
def get_inventory(self, context): """ Will locate vm in vcenter and fill its uuid :type context: cloudshell.shell.core.context.ResourceCommandContext """ vcenter_vm_name = context.resource.attributes['vCenter VM'] vcenter_vm_name = vcenter_vm_name.replace('\\', '/') ...
python
def get_inventory(self, context): """ Will locate vm in vcenter and fill its uuid :type context: cloudshell.shell.core.context.ResourceCommandContext """ vcenter_vm_name = context.resource.attributes['vCenter VM'] vcenter_vm_name = vcenter_vm_name.replace('\\', '/') ...
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train
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QualiSystems/vCenterShell
package/cloudshell/cp/vcenter/commands/retrieve_snapshots.py
RetrieveSnapshotsCommand.get_snapshots
def get_snapshots(self, si, logger, vm_uuid): """ Restores a virtual machine to a snapshot :param vim.ServiceInstance si: py_vmomi service instance :param logger: Logger :param vm_uuid: uuid of the virtual machine """ vm = self.pyvmomi_service.find_by_uuid(si, vm_...
python
def get_snapshots(self, si, logger, vm_uuid): """ Restores a virtual machine to a snapshot :param vim.ServiceInstance si: py_vmomi service instance :param logger: Logger :param vm_uuid: uuid of the virtual machine """ vm = self.pyvmomi_service.find_by_uuid(si, vm_...
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QualiSystems/vCenterShell
package/cloudshell/cp/vcenter/common/vcenter/vmomi_service.py
pyVmomiService.connect
def connect(self, address, user, password, port=443): """ Connect to vCenter via SSL and return SI object :param address: vCenter address (host / ip address) :param user: user name for authentication :param password:password for authentication :param port: ...
python
def connect(self, address, user, password, port=443): """ Connect to vCenter via SSL and return SI object :param address: vCenter address (host / ip address) :param user: user name for authentication :param password:password for authentication :param port: ...
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QualiSystems/vCenterShell
package/cloudshell/cp/vcenter/common/vcenter/vmomi_service.py
pyVmomiService.find_datacenter_by_name
def find_datacenter_by_name(self, si, path, name): """ Finds datacenter in the vCenter or returns "None" :param si: pyvmomi 'ServiceInstance' :param path: the path to find the object ('dc' or 'dc/folder' or 'dc/folder/folder/etc...') :param name: the datacent...
python
def find_datacenter_by_name(self, si, path, name): """ Finds datacenter in the vCenter or returns "None" :param si: pyvmomi 'ServiceInstance' :param path: the path to find the object ('dc' or 'dc/folder' or 'dc/folder/folder/etc...') :param name: the datacent...
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train
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QualiSystems/vCenterShell
package/cloudshell/cp/vcenter/common/vcenter/vmomi_service.py
pyVmomiService.find_by_uuid
def find_by_uuid(self, si, uuid, is_vm=True, path=None, data_center=None): """ Finds vm/host by his uuid in the vCenter or returns "None" :param si: pyvmomi 'ServiceInstance' :param uuid: the object uuid :param path: the path to find the object ('dc' or 'dc/f...
python
def find_by_uuid(self, si, uuid, is_vm=True, path=None, data_center=None): """ Finds vm/host by his uuid in the vCenter or returns "None" :param si: pyvmomi 'ServiceInstance' :param uuid: the object uuid :param path: the path to find the object ('dc' or 'dc/f...
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train
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QualiSystems/vCenterShell
package/cloudshell/cp/vcenter/common/vcenter/vmomi_service.py
pyVmomiService.find_item_in_path_by_type
def find_item_in_path_by_type(self, si, path, obj_type): """ This function finds the first item of that type in path :param ServiceInstance si: pyvmomi ServiceInstance :param str path: the path to search in :param type obj_type: the vim type of the object :return: pyvmomi...
python
def find_item_in_path_by_type(self, si, path, obj_type): """ This function finds the first item of that type in path :param ServiceInstance si: pyvmomi ServiceInstance :param str path: the path to search in :param type obj_type: the vim type of the object :return: pyvmomi...
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train
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QualiSystems/vCenterShell
package/cloudshell/cp/vcenter/common/vcenter/vmomi_service.py
pyVmomiService.find_host_by_name
def find_host_by_name(self, si, path, name): """ Finds datastore in the vCenter or returns "None" :param si: pyvmomi 'ServiceInstance' :param path: the path to find the object ('dc' or 'dc/folder' or 'dc/folder/folder/etc...') :param name: the datastore name ...
python
def find_host_by_name(self, si, path, name): """ Finds datastore in the vCenter or returns "None" :param si: pyvmomi 'ServiceInstance' :param path: the path to find the object ('dc' or 'dc/folder' or 'dc/folder/folder/etc...') :param name: the datastore name ...
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train
https://github.com/QualiSystems/vCenterShell/blob/e2e24cd938a92a68f4a8e6a860810d3ef72aae6d/package/cloudshell/cp/vcenter/common/vcenter/vmomi_service.py#L150-L158
QualiSystems/vCenterShell
package/cloudshell/cp/vcenter/common/vcenter/vmomi_service.py
pyVmomiService.find_datastore_by_name
def find_datastore_by_name(self, si, path, name): """ Finds datastore in the vCenter or returns "None" :param si: pyvmomi 'ServiceInstance' :param path: the path to find the object ('dc' or 'dc/folder' or 'dc/folder/folder/etc...') :param name: the datastore ...
python
def find_datastore_by_name(self, si, path, name): """ Finds datastore in the vCenter or returns "None" :param si: pyvmomi 'ServiceInstance' :param path: the path to find the object ('dc' or 'dc/folder' or 'dc/folder/folder/etc...') :param name: the datastore ...
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Finds datastore in the vCenter or returns "None" :param si: pyvmomi 'ServiceInstance' :param path: the path to find the object ('dc' or 'dc/folder' or 'dc/folder/folder/etc...') :param name: the datastore name to return
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train
https://github.com/QualiSystems/vCenterShell/blob/e2e24cd938a92a68f4a8e6a860810d3ef72aae6d/package/cloudshell/cp/vcenter/common/vcenter/vmomi_service.py#L160-L168
QualiSystems/vCenterShell
package/cloudshell/cp/vcenter/common/vcenter/vmomi_service.py
pyVmomiService.find_portgroup
def find_portgroup(self, si, dv_switch_path, name): """ Returns the portgroup on the dvSwitch :param name: str :param dv_switch_path: str :param si: service instance """ dv_switch = self.get_folder(si, dv_switch_path) if dv_switch and dv_switch.portgroup: ...
python
def find_portgroup(self, si, dv_switch_path, name): """ Returns the portgroup on the dvSwitch :param name: str :param dv_switch_path: str :param si: service instance """ dv_switch = self.get_folder(si, dv_switch_path) if dv_switch and dv_switch.portgroup: ...
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Returns the portgroup on the dvSwitch :param name: str :param dv_switch_path: str :param si: service instance
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train
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QualiSystems/vCenterShell
package/cloudshell/cp/vcenter/common/vcenter/vmomi_service.py
pyVmomiService.find_network_by_name
def find_network_by_name(self, si, path, name): """ Finds network in the vCenter or returns "None" :param si: pyvmomi 'ServiceInstance' :param path: the path to find the object ('dc' or 'dc/folder' or 'dc/folder/folder/etc...') :param name: the datastore name...
python
def find_network_by_name(self, si, path, name): """ Finds network in the vCenter or returns "None" :param si: pyvmomi 'ServiceInstance' :param path: the path to find the object ('dc' or 'dc/folder' or 'dc/folder/folder/etc...') :param name: the datastore name...
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Finds network in the vCenter or returns "None" :param si: pyvmomi 'ServiceInstance' :param path: the path to find the object ('dc' or 'dc/folder' or 'dc/folder/folder/etc...') :param name: the datastore name to return
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train
https://github.com/QualiSystems/vCenterShell/blob/e2e24cd938a92a68f4a8e6a860810d3ef72aae6d/package/cloudshell/cp/vcenter/common/vcenter/vmomi_service.py#L184-L192
QualiSystems/vCenterShell
package/cloudshell/cp/vcenter/common/vcenter/vmomi_service.py
pyVmomiService.find_vm_by_name
def find_vm_by_name(self, si, path, name): """ Finds vm in the vCenter or returns "None" :param si: pyvmomi 'ServiceInstance' :param path: the path to find the object ('dc' or 'dc/folder' or 'dc/folder/folder/etc...') :param name: the vm name to return ...
python
def find_vm_by_name(self, si, path, name): """ Finds vm in the vCenter or returns "None" :param si: pyvmomi 'ServiceInstance' :param path: the path to find the object ('dc' or 'dc/folder' or 'dc/folder/folder/etc...') :param name: the vm name to return ...
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Finds vm in the vCenter or returns "None" :param si: pyvmomi 'ServiceInstance' :param path: the path to find the object ('dc' or 'dc/folder' or 'dc/folder/folder/etc...') :param name: the vm name to return
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train
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QualiSystems/vCenterShell
package/cloudshell/cp/vcenter/common/vcenter/vmomi_service.py
pyVmomiService.find_obj_by_path
def find_obj_by_path(self, si, path, name, type_name): """ Finds object in the vCenter or returns "None" :param si: pyvmomi 'ServiceInstance' :param path: the path to find the object ('dc' or 'dc/folder' or 'dc/folder/folder/etc...') :param name: the object n...
python
def find_obj_by_path(self, si, path, name, type_name): """ Finds object in the vCenter or returns "None" :param si: pyvmomi 'ServiceInstance' :param path: the path to find the object ('dc' or 'dc/folder' or 'dc/folder/folder/etc...') :param name: the object n...
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Finds object in the vCenter or returns "None" :param si: pyvmomi 'ServiceInstance' :param path: the path to find the object ('dc' or 'dc/folder' or 'dc/folder/folder/etc...') :param name: the object name to return :param type_name: the name of the type, can be (vm,...
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train
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QualiSystems/vCenterShell
package/cloudshell/cp/vcenter/common/vcenter/vmomi_service.py
pyVmomiService.find_dvs_by_path
def find_dvs_by_path(self,si ,path): """ Finds vm in the vCenter or returns "None" :param si: pyvmomi 'ServiceInstance' :param path: the path to find the object ('dc' or 'dc/folder' or 'dc/folder/folder/etc...') """ dvs = self.get_folder(si, path) i...
python
def find_dvs_by_path(self,si ,path): """ Finds vm in the vCenter or returns "None" :param si: pyvmomi 'ServiceInstance' :param path: the path to find the object ('dc' or 'dc/folder' or 'dc/folder/folder/etc...') """ dvs = self.get_folder(si, path) i...
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train
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QualiSystems/vCenterShell
package/cloudshell/cp/vcenter/common/vcenter/vmomi_service.py
pyVmomiService.get_folder
def get_folder(self, si, path, root=None): """ Finds folder in the vCenter or returns "None" :param si: pyvmomi 'ServiceInstance' :param path: the path to find the object ('dc' or 'dc/folder' or 'dc/folder/folder/etc...') """ search_index = si.content.sear...
python
def get_folder(self, si, path, root=None): """ Finds folder in the vCenter or returns "None" :param si: pyvmomi 'ServiceInstance' :param path: the path to find the object ('dc' or 'dc/folder' or 'dc/folder/folder/etc...') """ search_index = si.content.sear...
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QualiSystems/vCenterShell
package/cloudshell/cp/vcenter/common/vcenter/vmomi_service.py
pyVmomiService.get_network_by_full_name
def get_network_by_full_name(self, si, default_network_full_name): """ Find network by a Full Name :param default_network_full_name: <str> Full Network Name - likes 'Root/Folder/Network' :return: """ path, name = get_path_and_name(default_network_full_name) return...
python
def get_network_by_full_name(self, si, default_network_full_name): """ Find network by a Full Name :param default_network_full_name: <str> Full Network Name - likes 'Root/Folder/Network' :return: """ path, name = get_path_and_name(default_network_full_name) return...
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QualiSystems/vCenterShell
package/cloudshell/cp/vcenter/common/vcenter/vmomi_service.py
pyVmomiService.get_obj
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python
def get_obj(self, content, vimtype, name): """ Return an object by name for a specific type, if name is None the first found object is returned :param content: pyvmomi content object :param vimtype: the type of object too search :param name: the object name t...
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QualiSystems/vCenterShell
package/cloudshell/cp/vcenter/common/vcenter/vmomi_service.py
pyVmomiService.clone_vm
def clone_vm(self, clone_params, logger, cancellation_context): """ Clone a VM from a template/VM and return the vm oject or throws argument is not valid :param cancellation_context: :param clone_params: CloneVmParameters = :param logger: """ result = self.CloneV...
python
def clone_vm(self, clone_params, logger, cancellation_context): """ Clone a VM from a template/VM and return the vm oject or throws argument is not valid :param cancellation_context: :param clone_params: CloneVmParameters = :param logger: """ result = self.CloneV...
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QualiSystems/vCenterShell
package/cloudshell/cp/vcenter/common/vcenter/vmomi_service.py
pyVmomiService.destroy_vm
def destroy_vm(self, vm, logger): """ destroy the given vm :param vm: virutal machine pyvmomi object :param logger: """ self.power_off_before_destroy(logger, vm) logger.info(("Destroying VM {0}".format(vm.name))) task = vm.Destroy_Task() retu...
python
def destroy_vm(self, vm, logger): """ destroy the given vm :param vm: virutal machine pyvmomi object :param logger: """ self.power_off_before_destroy(logger, vm) logger.info(("Destroying VM {0}".format(vm.name))) task = vm.Destroy_Task() retu...
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QualiSystems/vCenterShell
package/cloudshell/cp/vcenter/common/vcenter/vmomi_service.py
pyVmomiService.destroy_vm_by_name
def destroy_vm_by_name(self, si, vm_name, vm_path, logger): """ destroy the given vm :param si: pyvmomi 'ServiceInstance' :param vm_name: str name of the vm to destroyed :param vm_path: str path to the vm that will be destroyed :param logger: """ i...
python
def destroy_vm_by_name(self, si, vm_name, vm_path, logger): """ destroy the given vm :param si: pyvmomi 'ServiceInstance' :param vm_name: str name of the vm to destroyed :param vm_path: str path to the vm that will be destroyed :param logger: """ i...
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QualiSystems/vCenterShell
package/cloudshell/cp/vcenter/common/vcenter/vmomi_service.py
pyVmomiService.destroy_vm_by_uuid
def destroy_vm_by_uuid(self, si, vm_uuid, vm_path, logger): """ destroy the given vm :param si: pyvmomi 'ServiceInstance' :param vm_uuid: str uuid of the vm to destroyed :param vm_path: str path to the vm that will be destroyed :param logger: """ if v...
python
def destroy_vm_by_uuid(self, si, vm_uuid, vm_path, logger): """ destroy the given vm :param si: pyvmomi 'ServiceInstance' :param vm_uuid: str uuid of the vm to destroyed :param vm_path: str path to the vm that will be destroyed :param logger: """ if v...
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QualiSystems/vCenterShell
package/cloudshell/cp/vcenter/common/vcenter/vmomi_service.py
pyVmomiService.vm_reconfig_task
def vm_reconfig_task(vm, device_change): """ Create Task for VM re-configure :param vm: <vim.vm obj> VM which will be re-configure :param device_change: :return: Task """ config_spec = vim.vm.ConfigSpec(deviceChange=device_change) task = vm.ReconfigVM_Task...
python
def vm_reconfig_task(vm, device_change): """ Create Task for VM re-configure :param vm: <vim.vm obj> VM which will be re-configure :param device_change: :return: Task """ config_spec = vim.vm.ConfigSpec(deviceChange=device_change) task = vm.ReconfigVM_Task...
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QualiSystems/vCenterShell
package/cloudshell/cp/vcenter/common/vcenter/vmomi_service.py
pyVmomiService.vm_get_network_by_name
def vm_get_network_by_name(vm, network_name): """ Try to find Network scanning all attached to VM networks :param vm: <vim.vm> :param network_name: <str> name of network :return: <vim.vm.Network or None> """ # return None for network in vm.network: ...
python
def vm_get_network_by_name(vm, network_name): """ Try to find Network scanning all attached to VM networks :param vm: <vim.vm> :param network_name: <str> name of network :return: <vim.vm.Network or None> """ # return None for network in vm.network: ...
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QualiSystems/vCenterShell
package/cloudshell/cp/vcenter/common/vcenter/vmomi_service.py
pyVmomiService.get_vm_full_path
def get_vm_full_path(self, si, vm): """ :param vm: vim.VirtualMachine :return: """ folder_name = None folder = vm.parent if folder: folder_name = folder.name folder_parent = folder.parent while folder_parent and folder_parent....
python
def get_vm_full_path(self, si, vm): """ :param vm: vim.VirtualMachine :return: """ folder_name = None folder = vm.parent if folder: folder_name = folder.name folder_parent = folder.parent while folder_parent and folder_parent....
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QualiSystems/vCenterShell
package/cloudshell/cp/vcenter/commands/load_vm.py
VMLoader.load_vm_uuid_by_name
def load_vm_uuid_by_name(self, si, vcenter_data_model, vm_name): """ Returns the vm uuid :param si: Service instance to the vcenter :param vcenter_data_model: vcenter data model :param vm_name: the vm name :return: str uuid """ path = VMLocation.combine([v...
python
def load_vm_uuid_by_name(self, si, vcenter_data_model, vm_name): """ Returns the vm uuid :param si: Service instance to the vcenter :param vcenter_data_model: vcenter data model :param vm_name: the vm name :return: str uuid """ path = VMLocation.combine([v...
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QualiSystems/vCenterShell
package/cloudshell/cp/vcenter/commands/power_manager_vm.py
VirtualMachinePowerManagementCommand.power_off
def power_off(self, si, logger, session, vcenter_data_model, vm_uuid, resource_fullname): """ Power off of a vm :param vcenter_data_model: vcenter model :param si: Service Instance :param logger: :param session: :param vcenter_data_model: vcenter_data_model ...
python
def power_off(self, si, logger, session, vcenter_data_model, vm_uuid, resource_fullname): """ Power off of a vm :param vcenter_data_model: vcenter model :param si: Service Instance :param logger: :param session: :param vcenter_data_model: vcenter_data_model ...
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QualiSystems/vCenterShell
package/cloudshell/cp/vcenter/commands/power_manager_vm.py
VirtualMachinePowerManagementCommand.power_on
def power_on(self, si, logger, session, vm_uuid, resource_fullname): """ power on the specified vm :param si: :param logger: :param session: :param vm_uuid: the uuid of the vm :param resource_fullname: the full name of the deployed app resource :return: ...
python
def power_on(self, si, logger, session, vm_uuid, resource_fullname): """ power on the specified vm :param si: :param logger: :param session: :param vm_uuid: the uuid of the vm :param resource_fullname: the full name of the deployed app resource :return: ...
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QualiSystems/vCenterShell
package/cloudshell/cp/vcenter/common/utilites/context_based_logger_factory.py
ContextBasedLoggerFactory.create_logger_for_context
def create_logger_for_context(self, logger_name, context): """ Create QS Logger for command context AutoLoadCommandContext or ResourceCommandContext :param logger_name: :type logger_name: str :param context: :return: """ if self._is_instance_of(context, '...
python
def create_logger_for_context(self, logger_name, context): """ Create QS Logger for command context AutoLoadCommandContext or ResourceCommandContext :param logger_name: :type logger_name: str :param context: :return: """ if self._is_instance_of(context, '...
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QualiSystems/vCenterShell
package/cloudshell/cp/vcenter/commands/connect_dvswitch.py
VirtualSwitchConnectCommand.connect_to_networks
def connect_to_networks(self, si, logger, vm_uuid, vm_network_mappings, default_network_name, reserved_networks, dv_switch_name, promiscuous_mode): """ Connect VM to Network :param si: VmWare Service Instance - defined connection to vCenter :param logger: ...
python
def connect_to_networks(self, si, logger, vm_uuid, vm_network_mappings, default_network_name, reserved_networks, dv_switch_name, promiscuous_mode): """ Connect VM to Network :param si: VmWare Service Instance - defined connection to vCenter :param logger: ...
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QualiSystems/vCenterShell
package/cloudshell/cp/vcenter/vm/vnic_to_network_mapper.py
VnicToNetworkMapper.map_request_to_vnics
def map_request_to_vnics(self, requests, vnics, existing_network, default_network, reserved_networks): """ gets the requests for connecting netwoks and maps it the suitable vnic of specific is not specified :param reserved_networks: array of reserved networks :param requests: :pa...
python
def map_request_to_vnics(self, requests, vnics, existing_network, default_network, reserved_networks): """ gets the requests for connecting netwoks and maps it the suitable vnic of specific is not specified :param reserved_networks: array of reserved networks :param requests: :pa...
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QualiSystems/vCenterShell
package/cloudshell/cp/vcenter/common/vcenter/ovf_service.py
OvfImageDeployerService.deploy_image
def deploy_image(self, vcenter_data_model, image_params, logger): """ Receives ovf image parameters and deploy it on the designated vcenter :param VMwarevCenterResourceModel vcenter_data_model: :type image_params: vCenterShell.vm.ovf_image_params.OvfImageParams :param logger: ...
python
def deploy_image(self, vcenter_data_model, image_params, logger): """ Receives ovf image parameters and deploy it on the designated vcenter :param VMwarevCenterResourceModel vcenter_data_model: :type image_params: vCenterShell.vm.ovf_image_params.OvfImageParams :param logger: ...
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Receives ovf image parameters and deploy it on the designated vcenter :param VMwarevCenterResourceModel vcenter_data_model: :type image_params: vCenterShell.vm.ovf_image_params.OvfImageParams :param logger:
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QualiSystems/vCenterShell
package/cloudshell/cp/vcenter/common/vcenter/ovf_service.py
OvfImageDeployerService._get_args
def _get_args(self, ovf_tool_exe_path, image_params, logger): """ :type image_params: vCenterShell.vm.ovf_image_params.OvfImageParams """ # create vm name vm_name_param = VM_NAME_PARAM.format(image_params.vm_name) # datastore name datastore_param = DATA_STORE_PAR...
python
def _get_args(self, ovf_tool_exe_path, image_params, logger): """ :type image_params: vCenterShell.vm.ovf_image_params.OvfImageParams """ # create vm name vm_name_param = VM_NAME_PARAM.format(image_params.vm_name) # datastore name datastore_param = DATA_STORE_PAR...
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QualiSystems/vCenterShell
package/cloudshell/cp/vcenter/common/wrappers/command_wrapper.py
CommandWrapper.execute_command_with_connection
def execute_command_with_connection(self, context, command, *args): """ Note: session & vcenter_data_model & reservation id objects will be injected dynamically to the command :param command: :param context: instance of ResourceCommandContext or AutoLoadCommandContext :type conte...
python
def execute_command_with_connection(self, context, command, *args): """ Note: session & vcenter_data_model & reservation id objects will be injected dynamically to the command :param command: :param context: instance of ResourceCommandContext or AutoLoadCommandContext :type conte...
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QualiSystems/vCenterShell
package/cloudshell/cp/vcenter/common/wrappers/command_wrapper.py
CommandWrapper.has_connection_details_changed
def has_connection_details_changed(self, req_connection_details): """ :param cloudshell.cp.vcenter.models.VCenterConnectionDetails.VCenterConnectionDetails req_connection_details: :return: """ if self.connection_details is None and req_connection_details is None: retu...
python
def has_connection_details_changed(self, req_connection_details): """ :param cloudshell.cp.vcenter.models.VCenterConnectionDetails.VCenterConnectionDetails req_connection_details: :return: """ if self.connection_details is None and req_connection_details is None: retu...
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QualiSystems/vCenterShell
package/cloudshell/cp/vcenter/commands/restore_snapshot.py
SnapshotRestoreCommand.restore_snapshot
def restore_snapshot(self, si, logger, session, vm_uuid, resource_fullname, snapshot_name): """ Restores a virtual machine to a snapshot :param vim.ServiceInstance si: py_vmomi service instance :param logger: Logger :param session: CloudShellAPISession :type session: clou...
python
def restore_snapshot(self, si, logger, session, vm_uuid, resource_fullname, snapshot_name): """ Restores a virtual machine to a snapshot :param vim.ServiceInstance si: py_vmomi service instance :param logger: Logger :param session: CloudShellAPISession :type session: clou...
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Restores a virtual machine to a snapshot :param vim.ServiceInstance si: py_vmomi service instance :param logger: Logger :param session: CloudShellAPISession :type session: cloudshell_api.CloudShellAPISession :param vm_uuid: uuid of the virtual machine :param resource_full...
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QualiSystems/vCenterShell
package/cloudshell/cp/vcenter/commands/restore_snapshot.py
SnapshotRestoreCommand._get_snapshot
def _get_snapshot(vm, snapshot_name): """ Returns snapshot object by its name :param vm: :param snapshot_name: :type snapshot_name: str :return: Snapshot by its name :rtype vim.vm.Snapshot """ snapshots = SnapshotRetriever.get_vm_snapshots(vm) ...
python
def _get_snapshot(vm, snapshot_name): """ Returns snapshot object by its name :param vm: :param snapshot_name: :type snapshot_name: str :return: Snapshot by its name :rtype vim.vm.Snapshot """ snapshots = SnapshotRetriever.get_vm_snapshots(vm) ...
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QualiSystems/vCenterShell
package/cloudshell/cp/vcenter/commands/save_sandbox.py
SaveAppCommand.save_app
def save_app(self, si, logger, vcenter_data_model, reservation_id, save_app_actions, cancellation_context): """ Cretaes an artifact of an app, that can later be restored :param vcenter_data_model: VMwarevCenterResourceModel :param vim.ServiceInstance si: py_vmomi service instance ...
python
def save_app(self, si, logger, vcenter_data_model, reservation_id, save_app_actions, cancellation_context): """ Cretaes an artifact of an app, that can later be restored :param vcenter_data_model: VMwarevCenterResourceModel :param vim.ServiceInstance si: py_vmomi service instance ...
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Cretaes an artifact of an app, that can later be restored :param vcenter_data_model: VMwarevCenterResourceModel :param vim.ServiceInstance si: py_vmomi service instance :type si: vim.ServiceInstance :param logger: Logger :type logger: cloudshell.core.logger.qs_logger.get_qs_logg...
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openfisca/country-template
openfisca_country_template/variables/benefits.py
housing_allowance.formula_1980
def formula_1980(household, period, parameters): ''' To compute this allowance, the 'rent' value must be provided for the same month, but 'housing_occupancy_status' is not necessary. ''' return household('rent', period) * parameters(period).benefits.housing_allowance
python
def formula_1980(household, period, parameters): ''' To compute this allowance, the 'rent' value must be provided for the same month, but 'housing_occupancy_status' is not necessary. ''' return household('rent', period) * parameters(period).benefits.housing_allowance
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openfisca/country-template
openfisca_country_template/variables/benefits.py
pension.formula
def formula(person, period, parameters): ''' A person's pension depends on their birth date. In French: retraite selon l'âge. In Arabic: تقاعد. ''' age_condition = person('age', period) >= parameters(period).general.age_of_retirement return age_condition
python
def formula(person, period, parameters): ''' A person's pension depends on their birth date. In French: retraite selon l'âge. In Arabic: تقاعد. ''' age_condition = person('age', period) >= parameters(period).general.age_of_retirement return age_condition
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QualiSystems/vCenterShell
package/cloudshell/cp/vcenter/common/utilites/command_result.py
set_command_result
def set_command_result(result, unpicklable=False): """ Serializes output as JSON and writes it to console output wrapped with special prefix and suffix :param result: Result to return :param unpicklable: If True adds JSON can be deserialized as real object. When False will be des...
python
def set_command_result(result, unpicklable=False): """ Serializes output as JSON and writes it to console output wrapped with special prefix and suffix :param result: Result to return :param unpicklable: If True adds JSON can be deserialized as real object. When False will be des...
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QualiSystems/vCenterShell
package/cloudshell/cp/vcenter/common/vcenter/model_auto_discovery.py
VCenterAutoModelDiscovery.validate_and_discover
def validate_and_discover(self, context): """ :type context: models.QualiDriverModels.AutoLoadCommandContext """ logger = self._get_logger(context) logger.info('Autodiscovery started') si = None resource = None with CloudShellSessionContext(context) as cl...
python
def validate_and_discover(self, context): """ :type context: models.QualiDriverModels.AutoLoadCommandContext """ logger = self._get_logger(context) logger.info('Autodiscovery started') si = None resource = None with CloudShellSessionContext(context) as cl...
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QualiSystems/vCenterShell
package/cloudshell/cp/vcenter/common/vcenter/model_auto_discovery.py
VCenterAutoModelDiscovery._make_attributes_slash_backslash_agnostic
def _make_attributes_slash_backslash_agnostic(attributes_with_slash_or_backslash): """ :param attributes_with_slash_or_backslash: resource attributes from cloudshell.cp.vcenter.models.QualiDriverModels.ResourceContextDetails :type attributes_with_slash_or_backslash: dict[str,str] ...
python
def _make_attributes_slash_backslash_agnostic(attributes_with_slash_or_backslash): """ :param attributes_with_slash_or_backslash: resource attributes from cloudshell.cp.vcenter.models.QualiDriverModels.ResourceContextDetails :type attributes_with_slash_or_backslash: dict[str,str] ...
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QualiSystems/vCenterShell
package/cloudshell/cp/vcenter/commands/command_orchestrator.py
CommandOrchestrator.save_sandbox
def save_sandbox(self, context, save_actions, cancellation_context): """ Save sandbox command, persists an artifact of existing VMs, from which new vms can be restored :param ResourceCommandContext context: :param list[SaveApp] save_actions: :param CancellationContext cancellatio...
python
def save_sandbox(self, context, save_actions, cancellation_context): """ Save sandbox command, persists an artifact of existing VMs, from which new vms can be restored :param ResourceCommandContext context: :param list[SaveApp] save_actions: :param CancellationContext cancellatio...
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