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econ-ark/HARK
HARK/cAndCwithStickyE/StickyEtools.py
https://github.com/econ-ark/HARK/blob/3d184153a189e618a87c9540df1cd12044039cc5/HARK/cAndCwithStickyE/StickyEtools.py#L46-L196
def makeStickyEdataFile(Economy,ignore_periods,description='',filename=None,save_data=False,calc_micro_stats=True,meas_err_base=None): ''' Makes descriptive statistics and macroeconomic data file. Behaves slightly differently for heterogeneous agents vs representative agent models. Parameters -----...
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Makes descriptive statistics and macroeconomic data file. Behaves slightly differently for heterogeneous agents vs representative agent models. Parameters ---------- Economy : Market or AgentType A representation of the model economy. For heterogeneous agents specifications, this will ...
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python
train
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portfors-lab/sparkle
sparkle/gui/stim/dynamic_stacker.py
https://github.com/portfors-lab/sparkle/blob/5fad1cf2bec58ec6b15d91da20f6236a74826110/sparkle/gui/stim/dynamic_stacker.py#L7-L16
def widgetForName(self, name): """Gets a widget with *name* :param name: the widgets in this container should all have a name() method. This is the string to match to that result :type name: str """ for iwidget in range(len(self)): if self.widget(iwidget).na...
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Gets a widget with *name* :param name: the widgets in this container should all have a name() method. This is the string to match to that result :type name: str
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python
train
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newville/wxmplot
examples/floatcontrol.py
https://github.com/newville/wxmplot/blob/8e0dc037453e5cdf18c968dc5a3d29efd761edee/examples/floatcontrol.py#L135-L149
def SetValue(self, value=None, act=True): " main method to set value " if value is None: value = wx.TextCtrl.GetValue(self).strip() self.__CheckValid(value) self.__GetMark() if value is not None: wx.TextCtrl.SetValue(self, self.format % set_float(value)) ...
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python
train
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juju/charm-helpers
charmhelpers/contrib/hahelpers/cluster.py
https://github.com/juju/charm-helpers/blob/aa785c40c3b7a8c69dbfbc7921d6b9f30142e171/charmhelpers/contrib/hahelpers/cluster.py#L189-L195
def peer_ips(peer_relation='cluster', addr_key='private-address'): '''Return a dict of peers and their private-address''' peers = {} for r_id in relation_ids(peer_relation): for unit in relation_list(r_id): peers[unit] = relation_get(addr_key, rid=r_id, unit=unit) return peers
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train
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ScienceLogic/amiuploader
amiimporter/amiupload.py
https://github.com/ScienceLogic/amiuploader/blob/c36c247b2226107b38571cbc6119118b1fe07182/amiimporter/amiupload.py#L69-L77
def vmdk_to_ami(args): """ Calls methods to perform vmdk import :param args: :return: """ aws_importer = AWSUtilities.AWSUtils(args.directory, args.aws_profile, args.s3_bucket, args.aws_regions, args.ami_name, args.vmdk_upload_file) aws_importer.impor...
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Calls methods to perform vmdk import :param args: :return:
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python
train
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NORDUnet/python-norduniclient
norduniclient/core.py
https://github.com/NORDUnet/python-norduniclient/blob/ee5084a6f45caac614b4fda4a023749ca52f786c/norduniclient/core.py#L655-L671
def create_relationship(manager, handle_id, other_handle_id, rel_type): """ Makes a relationship from node to other_node depending on which meta_type the nodes are. Returns the relationship or raises NoRelationshipPossible exception. """ meta_type = get_node_meta_type(manager, handle_id) if ...
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Makes a relationship from node to other_node depending on which meta_type the nodes are. Returns the relationship or raises NoRelationshipPossible exception.
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python
train
57
mfcloud/python-zvm-sdk
smtLayer/vmUtils.py
https://github.com/mfcloud/python-zvm-sdk/blob/de9994ceca764f5460ce51bd74237986341d8e3c/smtLayer/vmUtils.py#L724-L779
def isLoggedOn(rh, userid): """ Determine whether a virtual machine is logged on. Input: Request Handle: userid being queried Output: Dictionary containing the following: overallRC - overall return code, 0: success, non-zero: failure rc - 0: if we got...
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python
train
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cltl/KafNafParserPy
KafNafParserPy/KafNafParserMod.py
https://github.com/cltl/KafNafParserPy/blob/9bc32e803c176404b255ba317479b8780ed5f569/KafNafParserPy/KafNafParserMod.py#L621-L629
def get_properties(self): """ Returns all the properties of the features layer (iterator) @rtype: L{Cproperty} @return: list of properties """ if self.features_layer is not None: for property in self.features_layer.get_properties(): yield prope...
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python
train
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tobiasfeistmantl/python-actioncable-zwei
actioncable/connection.py
https://github.com/tobiasfeistmantl/python-actioncable-zwei/blob/04876b4425a295485af8976acceb0b46d2ef1c8d/actioncable/connection.py#L149-L157
def _on_close(self, socket): """ Called when the connection was closed. """ self.logger.debug('Connection closed.') for subscription in self.subscriptions.values(): if subscription.state == 'subscribed': subscription.state = 'connection_pending'
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Called when the connection was closed.
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python
train
34
Capitains/MyCapytain
MyCapytain/common/utils/xml.py
https://github.com/Capitains/MyCapytain/blob/b11bbf6b6ae141fc02be70471e3fbf6907be6593/MyCapytain/common/utils/xml.py#L82-L107
def xmlparser(xml, objectify=True): """ Parse xml :param xml: XML element :type xml: Union[text_type, lxml.etree._Element] :rtype: lxml.etree._Element :returns: An element object :raises: TypeError if element is not in accepted type """ doclose = None if isinstance(xml, (etree._Ele...
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python
train
28.384615
square/pylink
pylink/jlink.py
https://github.com/square/pylink/blob/81dda0a191d923a8b2627c52cb778aba24d279d7/pylink/jlink.py#L3545-L3589
def software_breakpoint_set(self, addr, thumb=False, arm=False, flash=False, ram=False): """Sets a software breakpoint at the specified address. If ``thumb`` is ``True``, the breakpoint is set in THUMB-mode, while if ``arm`` is ``True``, the breakpoint is set in ARM-mode, otherwise a no...
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Sets a software breakpoint at the specified address. If ``thumb`` is ``True``, the breakpoint is set in THUMB-mode, while if ``arm`` is ``True``, the breakpoint is set in ARM-mode, otherwise a normal breakpoint is set. If ``flash`` is ``True``, the breakpoint is set in flash, otherwise...
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python
train
41.288889
jopohl/urh
src/urh/models/TableModel.py
https://github.com/jopohl/urh/blob/2eb33b125c8407964cd1092843cde5010eb88aae/src/urh/models/TableModel.py#L337-L373
def find_differences(self, refindex: int): """ Search all differences between protocol messages regarding a reference message :param refindex: index of reference message :rtype: dict[int, set[int]] """ differences = defaultdict(set) if refindex >= len(self.proto...
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python
train
32.891892
crate/crate-python
src/crate/client/cursor.py
https://github.com/crate/crate-python/blob/68e39c95f5bbe88b74bbfa26de4347fc644636a8/src/crate/client/cursor.py#L43-L56
def execute(self, sql, parameters=None, bulk_parameters=None): """ Prepare and execute a database operation (query or command). """ if self.connection._closed: raise ProgrammingError("Connection closed") if self._closed: raise ProgrammingError("Cursor clo...
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Prepare and execute a database operation (query or command).
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python
train
38.071429
inveniosoftware/invenio-records-files
invenio_records_files/api.py
https://github.com/inveniosoftware/invenio-records-files/blob/c410eba986ea43be7e97082d5dcbbdc19ccec39c/invenio_records_files/api.py#L180-L192
def sort_by(self, *ids): """Update files order. :param ids: List of ids specifying the final status of the list. """ # Support sorting by file_ids or keys. files = {str(f_.file_id): f_.key for f_ in self} # self.record['_files'] = [{'key': files.get(id_, id_)} for id_ in...
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Update files order. :param ids: List of ids specifying the final status of the list.
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python
train
36.846154
sixty-north/cosmic-ray
plugins/execution-engines/celery4/cosmic_ray_celery4_engine/worker.py
https://github.com/sixty-north/cosmic-ray/blob/c654e074afbb7b7fcbc23359083c1287c0d3e991/plugins/execution-engines/celery4/cosmic_ray_celery4_engine/worker.py#L25-L48
def worker_task(work_item, config): """The celery task which performs a single mutation and runs a test suite. This runs `cosmic-ray worker` in a subprocess and returns the results, passing `config` to it via stdin. Args: work_item: A dict describing a WorkItem. config: The configurati...
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The celery task which performs a single mutation and runs a test suite. This runs `cosmic-ray worker` in a subprocess and returns the results, passing `config` to it via stdin. Args: work_item: A dict describing a WorkItem. config: The configuration to use for the test execution. Retu...
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python
train
27.541667
inspirehep/harvesting-kit
harvestingkit/inspire_cds_package/from_cds.py
https://github.com/inspirehep/harvesting-kit/blob/33a7f8aa9dade1d863110c6d8b27dfd955cb471f/harvestingkit/inspire_cds_package/from_cds.py#L111-L157
def determine_collections(self): """Try to determine which collections this record should belong to.""" for value in record_get_field_values(self.record, '980', code='a'): if 'NOTE' in value.upper(): self.collections.add('NOTE') if 'THESIS' in value.upper(): ...
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Try to determine which collections this record should belong to.
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python
valid
41
bloomberg/bqplot
bqplot/pyplot.py
https://github.com/bloomberg/bqplot/blob/8eb8b163abe9ee6306f6918067e2f36c1caef2ef/bqplot/pyplot.py#L743-L778
def imshow(image, format, **kwargs): """Draw an image in the current context figure. Parameters ---------- image: image data Image data, depending on the passed format, can be one of: - an instance of an ipywidgets Image - a file name - a raw byte string f...
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Draw an image in the current context figure. Parameters ---------- image: image data Image data, depending on the passed format, can be one of: - an instance of an ipywidgets Image - a file name - a raw byte string format: {'widget', 'filename', ...} T...
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python
train
37.916667
langloisjp/pysvcmetrics
statsdclient.py
https://github.com/langloisjp/pysvcmetrics/blob/a126fc029ab645d9db46c0f5712c416cdf80e370/statsdclient.py#L40-L48
def gauge(self, stats, value): """ Log gauges >>> client = StatsdClient() >>> client.gauge('example.gauge', 47) >>> client.gauge(('example.gauge41', 'example.gauge43'), 47) """ self.update_stats(stats, value, self.SC_GAUGE)
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python
train
30.222222
MonashBI/arcana
arcana/repository/xnat.py
https://github.com/MonashBI/arcana/blob/d6271a29d13733d00422d11417af8d200be62acc/arcana/repository/xnat.py#L582-L592
def convert_subject_ids(self, subject_ids): """ Convert subject ids to strings if they are integers """ # TODO: need to make this generalisable via a # splitting+mapping function passed to the repository if subject_ids is not None: subject_ids = set( ...
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python
train
39.818182
Cito/DBUtils
DBUtils/SteadyPg.py
https://github.com/Cito/DBUtils/blob/90e8825e038f08c82044b8e50831480175fa026a/DBUtils/SteadyPg.py#L188-L207
def reopen(self): """Reopen the tough connection. It will not complain if the connection cannot be reopened. """ try: self._con.reopen() except Exception: if self._transcation: self._transaction = False try: ...
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Reopen the tough connection. It will not complain if the connection cannot be reopened.
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python
train
26.85
ssalentin/plip
plip/modules/mp.py
https://github.com/ssalentin/plip/blob/906c8d36463689779b403f6c2c9ed06174acaf9a/plip/modules/mp.py#L30-L32
def pool_args(function, sequence, kwargs): """Return a single iterator of n elements of lists of length 3, given a sequence of len n.""" return zip(itertools.repeat(function), sequence, itertools.repeat(kwargs))
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Return a single iterator of n elements of lists of length 3, given a sequence of len n.
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python
train
72.333333
tensorflow/mesh
mesh_tensorflow/transformer/utils.py
https://github.com/tensorflow/mesh/blob/3921196e5e43302e820da0a87329f25d7e2a3016/mesh_tensorflow/transformer/utils.py#L524-L712
def run(tpu_job_name, tpu, gcp_project, tpu_zone, model_dir, model_type="bitransformer", vocabulary=gin.REQUIRED, train_dataset_fn=None, eval_dataset_fn=None, dataset_split="train", autostack=True, checkpoint_path="", mode="...
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Run training/eval/inference. Args: tpu_job_name: string, name of TPU worker binary tpu: string, the Cloud TPU to use for training gcp_project: string, project name for the Cloud TPU-enabled project tpu_zone: string, GCE zone where the Cloud TPU is located in model_dir: string, estimator model_dir...
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python
train
37.15873
fabiobatalha/crossrefapi
crossref/restful.py
https://github.com/fabiobatalha/crossrefapi/blob/53f84ee0d8a8fc6ad9b2493f51c5151e66d2faf7/crossref/restful.py#L1811-L1839
def request_doi_status_by_batch_id(self, doi_batch_id, data_type='result'): """ This method retrieve the DOI requests status. file_name: Used as unique ID to identify a deposit. data_type: [contents, result] contents - retrieve the XML submited by the publisher ...
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This method retrieve the DOI requests status. file_name: Used as unique ID to identify a deposit. data_type: [contents, result] contents - retrieve the XML submited by the publisher result - retrieve a XML with the status of the submission
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python
train
27.551724
JNRowe/upoints
upoints/gpx.py
https://github.com/JNRowe/upoints/blob/1e4b7a53ed2a06cd854523d54c36aabdccea3830/upoints/gpx.py#L207-L217
def range(self, location, distance): """Test whether locations are within a given range of ``location``. Args: location (Point): Location to test range against distance (float): Distance to test location is within Returns: list of list of Point: Groups of po...
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Test whether locations are within a given range of ``location``. Args: location (Point): Location to test range against distance (float): Distance to test location is within Returns: list of list of Point: Groups of points in range per segment
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python
train
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crm416/semantic
semantic/units.py
https://github.com/crm416/semantic/blob/46deb8fefb3ea58aad2fedc8d0d62f3ee254b8fe/semantic/units.py#L125-L146
def convert(self, inp): """Converts a string representation of some quantity of units into a quantities object. Args: inp (str): A textual representation of some quantity of units, e.g., "fifty kilograms". Returns: A quantities object representin...
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python
train
29.681818
Asana/python-asana
asana/resources/gen/sections.py
https://github.com/Asana/python-asana/blob/6deb7a34495db23f44858e53b6bb2c9eccff7872/asana/resources/gen/sections.py#L25-L34
def find_by_project(self, project, params={}, **options): """Returns the compact records for all sections in the specified project. Parameters ---------- project : {Id} The project to get sections from. [params] : {Object} Parameters for the request """ path = "...
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Returns the compact records for all sections in the specified project. Parameters ---------- project : {Id} The project to get sections from. [params] : {Object} Parameters for the request
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python
train
40.1
Alignak-monitoring/alignak
alignak/daemons/schedulerdaemon.py
https://github.com/Alignak-monitoring/alignak/blob/f3c145207e83159b799d3714e4241399c7740a64/alignak/daemons/schedulerdaemon.py#L503-L514
def clean_previous_run(self): """Clean variables from previous configuration :return: None """ # Execute the base class treatment... super(Alignak, self).clean_previous_run() # Clean all lists self.pollers.clear() self.reactionners.clear() self.b...
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Clean variables from previous configuration :return: None
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python
train
26.916667
mila/pyoo
pyoo.py
https://github.com/mila/pyoo/blob/1e024999f608c87ea72cd443e39c89eb0ba3cc62/pyoo.py#L1918-L1923
def open_spreadsheet(self, path, as_template=False): """ Opens an exiting spreadsheet document on the local file system. """ desktop = self.cls(self.hostname, self.port) return desktop.open_spreadsheet(path, as_template=as_template)
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Opens an exiting spreadsheet document on the local file system.
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python
train
44.5
AmesCornish/buttersink
buttersink/progress.py
https://github.com/AmesCornish/buttersink/blob/5cc37e30d9f8071fcf3497dca8b8a91b910321ea/buttersink/progress.py#L82-L88
def close(self): """ Stop overwriting display, or update parent. """ if self.parent: self.parent.update(self.parent.offset + self.offset) return self.output.write("\n") self.output.flush()
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Stop overwriting display, or update parent.
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python
train
34
geophysics-ubonn/crtomo_tools
src/td_plot.py
https://github.com/geophysics-ubonn/crtomo_tools/blob/27c3e21a557f8df1c12455b96c4c2e00e08a5b4a/src/td_plot.py#L719-L836
def create_singleplots(plotman, cov, mag, pha, pha_fpi, alpha, options): '''Plot the data of the tomodir in individual plots. ''' magunit = 'log_rho' if not pha == []: [real, imag] = calc_complex(mag, pha) if not pha_fpi == []: [real_fpi, imag_fpi] = calc_complex(mag, pha_fpi...
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Plot the data of the tomodir in individual plots.
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python
train
40.042373
RJT1990/pyflux
pyflux/garch/segarch.py
https://github.com/RJT1990/pyflux/blob/297f2afc2095acd97c12e827dd500e8ea5da0c0f/pyflux/garch/segarch.py#L219-L272
def _mean_prediction(self, lmda, Y, scores, h, t_params): """ Creates a h-step ahead mean prediction Parameters ---------- lmda : np.array The past predicted values Y : np.array The past data scores : np.array The past scores ...
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Creates a h-step ahead mean prediction Parameters ---------- lmda : np.array The past predicted values Y : np.array The past data scores : np.array The past scores h : int How many steps ahead for the prediction ...
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python
train
34.203704
tantale/deprecated
docs/source/tutorial/v3/liberty.py
https://github.com/tantale/deprecated/blob/3dc742c571de7cebbbdaaf4c554f2f36fc61b3db/docs/source/tutorial/v3/liberty.py#L18-L25
def better_print(self, printer=None): """ Print the value using a *printer*. :param printer: Callable used to print the value, by default: :func:`pprint.pprint` """ printer = printer or pprint.pprint printer(self.value)
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Print the value using a *printer*. :param printer: Callable used to print the value, by default: :func:`pprint.pprint`
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python
train
32.625
baguette-io/baguette-messaging
farine/connectors/sql/__init__.py
https://github.com/baguette-io/baguette-messaging/blob/8d1c4707ea7eace8617fed2d97df2fcc9d0cdee1/farine/connectors/sql/__init__.py#L19-L26
def to_json(self, extras=None): """ Convert a model into a json using the playhouse shortcut. """ extras = extras or {} to_dict = model_to_dict(self) to_dict.update(extras) return json.dumps(to_dict, cls=sel.serializers.JsonEncoder)
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Convert a model into a json using the playhouse shortcut.
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python
train
35.125
inveniosoftware/invenio-pidrelations
invenio_pidrelations/models.py
https://github.com/inveniosoftware/invenio-pidrelations/blob/a49f3725cf595b663c5b04814280b231f88bc333/invenio_pidrelations/models.py#L106-L122
def create(cls, parent, child, relation_type, index=None): """Create a PID relation for given parent and child.""" try: with db.session.begin_nested(): obj = cls(parent_id=parent.id, child_id=child.id, relation_type=relation...
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Create a PID relation for given parent and child.
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python
train
42.705882
tomplus/kubernetes_asyncio
kubernetes_asyncio/client/api/admissionregistration_v1beta1_api.py
https://github.com/tomplus/kubernetes_asyncio/blob/f9ab15317ec921409714c7afef11aeb0f579985d/kubernetes_asyncio/client/api/admissionregistration_v1beta1_api.py#L1307-L1330
def read_mutating_webhook_configuration(self, name, **kwargs): # noqa: E501 """read_mutating_webhook_configuration # noqa: E501 read the specified MutatingWebhookConfiguration # noqa: E501 This method makes a synchronous HTTP request by default. To make an asynchronous HTTP request, ...
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read_mutating_webhook_configuration # noqa: E501 read the specified MutatingWebhookConfiguration # noqa: E501 This method makes a synchronous HTTP request by default. To make an asynchronous HTTP request, please pass async_req=True >>> thread = api.read_mutating_webhook_configuration(...
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python
train
56.375
collectiveacuity/labPack
labpack/location/find.py
https://github.com/collectiveacuity/labPack/blob/52949ece35e72e3cc308f54d9ffa6bfbd96805b8/labpack/location/find.py#L104-L130
def get_locations(self): ''' a method to retrieve all the locations tracked by the model :return: dictionary with location id keys NOTE: results are added to self.locations property { 'location.id': { ' ...
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a method to retrieve all the locations tracked by the model :return: dictionary with location id keys NOTE: results are added to self.locations property { 'location.id': { ' } }
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python
train
26.222222
kyper-data/python-highcharts
highcharts/highstock/highstock.py
https://github.com/kyper-data/python-highcharts/blob/a4c488ae5c2e125616efad5a722f3dfd8a9bc450/highcharts/highstock/highstock.py#L388-L396
def save_file(self, filename = 'StockChart'): """ save htmlcontent as .html file """ filename = filename + '.html' with open(filename, 'w') as f: #self.buildhtml() f.write(self.htmlcontent) f.closed
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save htmlcontent as .html file
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python
train
29.333333
bast/flanders
cmake/autocmake/configure.py
https://github.com/bast/flanders/blob/792f9eed8511cb553e67a25b6c5ce60fd6ae97bc/cmake/autocmake/configure.py#L36-L52
def setup_build_path(build_path): """ Create build directory. If this already exists, print informative error message and quit. """ if os.path.isdir(build_path): fname = os.path.join(build_path, 'CMakeCache.txt') if os.path.exists(fname): sys.stderr.write('aborting setup\...
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Create build directory. If this already exists, print informative error message and quit.
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python
train
37.117647
zooniverse/panoptes-python-client
panoptes_client/panoptes.py
https://github.com/zooniverse/panoptes-python-client/blob/138d93cb03378501a8d349428e381ad73f928680/panoptes_client/panoptes.py#L657-L672
def where(cls, **kwargs): """ Returns a generator which yields instances matching the given query arguments. For example, this would yield all :py:class:`.Project`:: Project.where() And this would yield all launch approved :py:class:`.Project`:: Projec...
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Returns a generator which yields instances matching the given query arguments. For example, this would yield all :py:class:`.Project`:: Project.where() And this would yield all launch approved :py:class:`.Project`:: Project.where(launch_approved=True)
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python
train
28.375
vpelletier/python-libusb1
usb1/libusb1.py
https://github.com/vpelletier/python-libusb1/blob/740c9778e28523e4ec3543415d95f5400ae0fa24/usb1/libusb1.py#L1083-L1095
def get_iso_packet_buffer_list(transfer_p): """ Python-specific helper extracting a list of iso packet buffers. """ transfer = transfer_p.contents offset = 0 result = [] append = result.append for iso_transfer in _get_iso_packet_list(transfer): length = iso_transfer.length ...
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Python-specific helper extracting a list of iso packet buffers.
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python
train
31.461538
cedricbonhomme/Stegano
stegano/lsbset/generators.py
https://github.com/cedricbonhomme/Stegano/blob/502e6303791d348e479290c22108551ba3be254f/stegano/lsbset/generators.py#L110-L118
def ackermann_naive(m: int, n: int) -> int: """Ackermann number. """ if m == 0: return n + 1 elif n == 0: return ackermann(m - 1, 1) else: return ackermann(m - 1, ackermann(m, n - 1))
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Ackermann number.
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python
train
24.333333
pydata/xarray
xarray/core/utils.py
https://github.com/pydata/xarray/blob/6d93a95d05bdbfc33fff24064f67d29dd891ab58/xarray/core/utils.py#L258-L265
def to_0d_array(value: Any) -> np.ndarray: """Given a value, wrap it in a 0-D numpy.ndarray. """ if np.isscalar(value) or (isinstance(value, np.ndarray) and value.ndim == 0): return np.array(value) else: return to_0d_object_array(value)
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Given a value, wrap it in a 0-D numpy.ndarray.
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python
train
36.375
joelfrederico/SciSalt
scisalt/matplotlib/pcolor_axes.py
https://github.com/joelfrederico/SciSalt/blob/7bf57c49c7dde0a8b0aa337fbd2fbd527ce7a67f/scisalt/matplotlib/pcolor_axes.py#L11-L30
def pcolor_axes(array, px_to_units=px_to_units): """ Return axes :code:`x, y` for *array* to be used with :func:`matplotlib.pyplot.color`. *px_to_units* is a function to convert pixels to units. By default, returns pixels. """ # ====================================== # Coords need to be +1 larg...
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Return axes :code:`x, y` for *array* to be used with :func:`matplotlib.pyplot.color`. *px_to_units* is a function to convert pixels to units. By default, returns pixels.
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python
valid
31.35
jamieleshaw/lurklib
lurklib/connection.py
https://github.com/jamieleshaw/lurklib/blob/a861f35d880140422103dd78ec3239814e85fd7e/lurklib/connection.py#L280-L304
def umode(self, nick, modes=''): """ Sets/gets user modes. Required arguments: * nick - Nick to set/get user modes for. Optional arguments: * modes='' - Sets these user modes on a nick. """ with self.lock: if not modes: self.sen...
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Sets/gets user modes. Required arguments: * nick - Nick to set/get user modes for. Optional arguments: * modes='' - Sets these user modes on a nick.
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python
train
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alefnula/tea
tea/console/color.py
https://github.com/alefnula/tea/blob/f5a0a724a425ec4f9dd2c7fe966ef06faf3a15a3/tea/console/color.py#L286-L308
def _colorize_single_line(line, regexp, color_def): """Print single line to console with ability to colorize parts of it.""" match = regexp.match(line) groupdict = match.groupdict() groups = match.groups() if not groupdict: # no named groups, just colorize whole line color = c...
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python
train
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blockstack/blockstack-core
blockstack/lib/nameset/db.py
https://github.com/blockstack/blockstack-core/blob/1dcfdd39b152d29ce13e736a6a1a0981401a0505/blockstack/lib/nameset/db.py#L2632-L2673
def namedb_get_name_preorder( db, preorder_hash, current_block ): """ Get a (singular) name preorder record outstanding at the given block, given the preorder hash. NOTE: returns expired preorders. Return the preorder record on success. Return None if not found. """ select_query = "SEL...
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Get a (singular) name preorder record outstanding at the given block, given the preorder hash. NOTE: returns expired preorders. Return the preorder record on success. Return None if not found.
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python
train
34.047619
artefactual-labs/mets-reader-writer
metsrw/mets.py
https://github.com/artefactual-labs/mets-reader-writer/blob/d95939cabdfdc25cb1bf67df0c84bd0d6e6a73ff/metsrw/mets.py#L342-L385
def _parse_tree_structmap(self, tree, parent_elem, normative_parent_elem=None): """Recursively parse all the children of parent_elem, including amdSecs and dmdSecs. :param lxml._ElementTree tree: encodes the entire METS file. :param lxml._Element parent_elem: the element whose children w...
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python
train
52.090909
bcbio/bcbio-nextgen
bcbio/illumina/flowcell.py
https://github.com/bcbio/bcbio-nextgen/blob/6a9348c0054ccd5baffd22f1bb7d0422f6978b20/bcbio/illumina/flowcell.py#L39-L54
def get_fastq_dir(fc_dir): """Retrieve the fastq directory within Solexa flowcell output. """ full_goat_bc = glob.glob(os.path.join(fc_dir, "Data", "*Firecrest*", "Bustard*")) bustard_bc = glob.glob(os.path.join(fc_dir, "Data", "Intensities", "*Bustard*")) machine_bc = os.path.join(fc_dir, "Data", "...
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Retrieve the fastq directory within Solexa flowcell output.
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python
train
45
PmagPy/PmagPy
pmagpy/pmag.py
https://github.com/PmagPy/PmagPy/blob/c7984f8809bf40fe112e53dcc311a33293b62d0b/pmagpy/pmag.py#L5150-L5165
def Dir_anis_corr(InDir, AniSpec): """ takes the 6 element 's' vector and the Dec,Inc 'InDir' data, performs simple anisotropy correction. returns corrected Dec, Inc """ Dir = np.zeros((3), 'f') Dir[0] = InDir[0] Dir[1] = InDir[1] Dir[2] = 1. chi, chi_inv = check_F(AniSpec) if ch...
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takes the 6 element 's' vector and the Dec,Inc 'InDir' data, performs simple anisotropy correction. returns corrected Dec, Inc
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python
train
27.6875
OpenTreeOfLife/peyotl
peyotl/git_storage/git_shard.py
https://github.com/OpenTreeOfLife/peyotl/blob/5e4e52a0fdbd17f490aa644ad79fda6ea2eda7c0/peyotl/git_storage/git_shard.py#L275-L287
def _read_master_branch_resource(self, fn, is_json=False): """This will force the current branch to master! """ with self._master_branch_repo_lock: ga = self._create_git_action_for_global_resource() with ga.lock(): ga.checkout_master() if os.path.e...
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This will force the current branch to master!
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python
train
43.615385
druids/django-chamber
chamber/models/__init__.py
https://github.com/druids/django-chamber/blob/eef4169923557e96877a664fa254e8c0814f3f23/chamber/models/__init__.py#L258-L264
def change_and_save(self, update_only_changed_fields=False, **changed_fields): """ Changes a given `changed_fields` on each object in the queryset, saves objects and returns the changed objects in the queryset. """ bulk_change_and_save(self, update_only_changed_fields=update_only...
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Changes a given `changed_fields` on each object in the queryset, saves objects and returns the changed objects in the queryset.
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python
train
53.857143
tethysplatform/condorpy
condorpy/job.py
https://github.com/tethysplatform/condorpy/blob/a5aaaef0d73198f7d9756dda7abe98b4e209f1f4/condorpy/job.py#L183-L191
def log_file(self): """The path to the log file for this job. """ log_file = self.get('log') if not log_file: log_file = '%s.log' % (self.name) self.set('log', log_file) return os.path.join(self.initial_dir, self.get('log'))
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The path to the log file for this job.
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python
train
31.222222
ewels/MultiQC
multiqc/modules/fastqc/fastqc.py
https://github.com/ewels/MultiQC/blob/2037d6322b2554146a74efbf869156ad20d4c4ec/multiqc/modules/fastqc/fastqc.py#L939-L951
def avg_bp_from_range(self, bp): """ Helper function - FastQC often gives base pair ranges (eg. 10-15) which are not helpful when plotting. This returns the average from such ranges as an int, which is helpful. If not a range, just returns the int """ try: if '-' in bp: ...
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Helper function - FastQC often gives base pair ranges (eg. 10-15) which are not helpful when plotting. This returns the average from such ranges as an int, which is helpful. If not a range, just returns the int
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python
train
40.307692
aio-libs/aioftp
ftpbench.py
https://github.com/aio-libs/aioftp/blob/b45395b1aba41301b898040acade7010e6878a08/ftpbench.py#L159-L174
def human2bytes(s): """ >>> human2bytes('1M') 1048576 >>> human2bytes('1G') 1073741824 """ symbols = ('B', 'K', 'M', 'G', 'T', 'P', 'E', 'Z', 'Y') letter = s[-1:].strip().upper() num = s[:-1] assert num.isdigit() and letter in symbols, s num = float(num) prefix = {symbols...
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>>> human2bytes('1M') 1048576 >>> human2bytes('1G') 1073741824
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python
valid
26.6875
vilmibm/done
parsedatetime/parsedatetime.py
https://github.com/vilmibm/done/blob/7e5b60d2900ceddefa49de352a19b794199b51a8/parsedatetime/parsedatetime.py#L389-L440
def parseDateText(self, dateString): """ Parse long-form date strings:: 'May 31st, 2006' 'Jan 1st' 'July 2006' @type dateString: string @param dateString: text to convert to a datetime @rtype: struct_time @return: calcu...
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Parse long-form date strings:: 'May 31st, 2006' 'Jan 1st' 'July 2006' @type dateString: string @param dateString: text to convert to a datetime @rtype: struct_time @return: calculated C{struct_time} value of dateString
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python
train
29.211538
peergradeio/flask-mongo-profiler
flask_mongo_profiler/contrib/flask_admin/formatters/polymorphic_relations.py
https://github.com/peergradeio/flask-mongo-profiler/blob/a267eeb49fea07c9a24fb370bd9d7a90ed313ccf/flask_mongo_profiler/contrib/flask_admin/formatters/polymorphic_relations.py#L27-L65
def generic_ref_formatter(view, context, model, name, lazy=False): """ For GenericReferenceField and LazyGenericReferenceField See Also -------- diff_formatter """ try: if lazy: rel_model = getattr(model, name).fetch() else: rel_model = getattr(model,...
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For GenericReferenceField and LazyGenericReferenceField See Also -------- diff_formatter
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python
train
31.205128
psd-tools/psd-tools
src/psd_tools/api/layers.py
https://github.com/psd-tools/psd-tools/blob/4952b57bcf1cf2c1f16fd9d6d51d4fa0b53bce4e/src/psd_tools/api/layers.py#L342-L351
def compose(self, *args, **kwargs): """ Compose layer and masks (mask, vector mask, and clipping layers). :return: :py:class:`PIL.Image`, or `None` if the layer has no pixel. """ from psd_tools.api.composer import compose_layer if self.bbox == (0, 0, 0, 0): r...
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Compose layer and masks (mask, vector mask, and clipping layers). :return: :py:class:`PIL.Image`, or `None` if the layer has no pixel.
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python
train
37.3
jmcarp/flask-apispec
flask_apispec/annotations.py
https://github.com/jmcarp/flask-apispec/blob/d8cb658fa427f051568e58d6af201b8e9924c325/flask_apispec/annotations.py#L74-L91
def doc(inherit=None, **kwargs): """Annotate the decorated view function or class with the specified Swagger attributes. Usage: .. code-block:: python @doc(tags=['pet'], description='a pet store') def get_pet(pet_id): return Pet.query.filter(Pet.id == pet_id).one() :p...
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Annotate the decorated view function or class with the specified Swagger attributes. Usage: .. code-block:: python @doc(tags=['pet'], description='a pet store') def get_pet(pet_id): return Pet.query.filter(Pet.id == pet_id).one() :param inherit: Inherit Swagger documentat...
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python
train
28
O365/python-o365
release.py
https://github.com/O365/python-o365/blob/02a71cf3775cc6a3c042e003365d6a07c8c75a73/release.py#L50-L69
def upload(ctx, release, rebuild): """ Uploads distribuition files to pypi or pypitest. """ dist_path = Path(DIST_PATH) if rebuild is False: if not dist_path.exists() or not list(dist_path.glob('*')): print("No distribution files found. Please run 'build' command first") retu...
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Uploads distribuition files to pypi or pypitest.
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python
train
31.8
Chilipp/psy-simple
psy_simple/base.py
https://github.com/Chilipp/psy-simple/blob/7d916406a6d3c3c27c0b7102f98fef07a4da0a61/psy_simple/base.py#L133-L167
def get_fig_data_attrs(self, delimiter=None): """Join the data attributes with other plotters in the project This method joins the attributes of the :class:`~psyplot.InteractiveBase` instances in the project that draw on the same figure as this instance does. Parameters ...
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Join the data attributes with other plotters in the project This method joins the attributes of the :class:`~psyplot.InteractiveBase` instances in the project that draw on the same figure as this instance does. Parameters ---------- delimiter: str Specifies ...
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python
train
42.371429
Robpol86/docoptcfg
docoptcfg.py
https://github.com/Robpol86/docoptcfg/blob/3746dc263549f7f3ef5a86e739d588546b084bde/docoptcfg.py#L234-L279
def docoptcfg(doc, argv=None, env_prefix=None, config_option=None, ignore=None, *args, **kwargs): """Pass most args/kwargs to docopt. Handle `env_prefix` and `config_option`. :raise DocoptcfgError: If `config_option` isn't found in docstring. :raise DocoptcfgFileError: On any error while trying to read and...
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Pass most args/kwargs to docopt. Handle `env_prefix` and `config_option`. :raise DocoptcfgError: If `config_option` isn't found in docstring. :raise DocoptcfgFileError: On any error while trying to read and parse config file (if enabled). :param str doc: Docstring passed to docopt. :param iter argv: s...
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python
train
43.086957
sdispater/orator
orator/orm/builder.py
https://github.com/sdispater/orator/blob/bd90bf198ee897751848f9a92e49d18e60a74136/orator/orm/builder.py#L63-L85
def without_global_scope(self, scope): """ Remove a registered global scope. :param scope: The scope to remove :type scope: Scope or str :rtype: Builder """ if isinstance(scope, basestring): del self._scopes[scope] return self k...
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Remove a registered global scope. :param scope: The scope to remove :type scope: Scope or str :rtype: Builder
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python
train
23.782609
rbarrois/aionotify
aionotify/base.py
https://github.com/rbarrois/aionotify/blob/6cfa35b26a2660f77f29a92d3efb7d1dde685b43/aionotify/base.py#L84-L93
def setup(self, loop): """Start the watcher, registering new watches if any.""" self._loop = loop self._fd = LibC.inotify_init() for alias, (path, flags) in self.requests.items(): self._setup_watch(alias, path, flags) # We pass ownership of the fd to the transport; ...
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Start the watcher, registering new watches if any.
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python
test
41.9
automl/HpBandSter
hpbandster/optimizers/kde/mvkde.py
https://github.com/automl/HpBandSter/blob/841db4b827f342e5eb7f725723ea6461ac52d45a/hpbandster/optimizers/kde/mvkde.py#L210-L237
def _get_types(self): """ extracts the needed types from the configspace for faster retrival later type = 0 - numerical (continuous or integer) parameter type >=1 - categorical parameter TODO: figure out a way to properly handle ordinal parameters """ types = [] num_values = [] for hp in se...
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extracts the needed types from the configspace for faster retrival later type = 0 - numerical (continuous or integer) parameter type >=1 - categorical parameter TODO: figure out a way to properly handle ordinal parameters
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python
train
32.25
PetrochukM/PyTorch-NLP
torchnlp/utils.py
https://github.com/PetrochukM/PyTorch-NLP/blob/5f7320da5c8d781df072fab3f7e421c6347e5bfa/torchnlp/utils.py#L241-L281
def tensors_to(tensors, *args, **kwargs): """ Apply ``torch.Tensor.to`` to tensors in a generic data structure. Inspired by: https://github.com/pytorch/pytorch/blob/master/torch/utils/data/_utils/collate.py#L31 Args: tensors (tensor, dict, list, namedtuple or tuple): Data structure with tensor...
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python
train
40.317073
joelfrederico/SciSalt
scisalt/facettools/logbookForm.py
https://github.com/joelfrederico/SciSalt/blob/7bf57c49c7dde0a8b0aa337fbd2fbd527ce7a67f/scisalt/facettools/logbookForm.py#L359-L390
def submitEntry(self): """Process user inputs and subit logbook entry when user clicks Submit button""" # logType = self.logui.logType.currentText() mcclogs, physlogs = self.selectedLogs() success = True if mcclogs != []: if not self.acceptedUser("MC...
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Process user inputs and subit logbook entry when user clicks Submit button
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python
valid
37.75
woolfson-group/isambard
isambard/ampal/protein.py
https://github.com/woolfson-group/isambard/blob/ebc33b48a28ad217e18f93b910dfba46e6e71e07/isambard/ampal/protein.py#L1069-L1141
def n_cap(self, n_cap='acetyl', cap_dihedral=None): """Adds an N-terminal acetamide cap. Notes ----- Default behaviour is to duplicate the dihedral angle of the succeeding residues such that the orientation of the carbonyl of the acetyl will resemble that of the first re...
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Adds an N-terminal acetamide cap. Notes ----- Default behaviour is to duplicate the dihedral angle of the succeeding residues such that the orientation of the carbonyl of the acetyl will resemble that of the first residue. This can be adjusted by supplying a cap_dihedral...
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python
train
49.164384
happyleavesaoc/python-limitlessled
limitlessled/group/commands/legacy.py
https://github.com/happyleavesaoc/python-limitlessled/blob/70307c2bf8c91430a99579d2ad18b228ec7a8488/limitlessled/group/commands/legacy.py#L29-L42
def get_bytes(self, bridge): """ Gets the full command as bytes. :param bridge: The bridge, to which the command should be sent. """ if self.cmd_2 is not None: cmd = [self.cmd_1, self.cmd_2] else: cmd = [self.cmd_1, self.SUFFIX_BYTE] if br...
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Gets the full command as bytes. :param bridge: The bridge, to which the command should be sent.
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python
train
30.642857
jlesquembre/autopilot
src/autopilot/main.py
https://github.com/jlesquembre/autopilot/blob/ca5f36269ba0173bd29c39db6971dac57a58513d/src/autopilot/main.py#L28-L46
def new(project_name): """Creates a new project""" try: locale.setlocale(locale.LC_ALL, '') except: print("Warning: Unable to set locale. Expect encoding problems.") config = utils.get_config() config['new_project']['project_name'] = project_name values = new_project_ui(confi...
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Creates a new project
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python
train
28.157895
spyder-ide/spyder
spyder/plugins/editor/utils/editor.py
https://github.com/spyder-ide/spyder/blob/f76836ce1b924bcc4efd3f74f2960d26a4e528e0/spyder/plugins/editor/utils/editor.py#L267-L276
def word_under_mouse_cursor(self): """ Selects the word under the **mouse** cursor. :return: A QTextCursor with the word under mouse cursor selected. """ editor = self._editor text_cursor = editor.cursorForPosition(editor._last_mouse_pos) text_cursor = self.word_...
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Selects the word under the **mouse** cursor. :return: A QTextCursor with the word under mouse cursor selected.
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python
train
36.9
facetoe/zenpy
zenpy/lib/api.py
https://github.com/facetoe/zenpy/blob/34c54c7e408b9ed01604ddf8b3422204c8bf31ea/zenpy/lib/api.py#L1055-L1063
def comments(self, ticket, include_inline_images=False): """ Retrieve the comments for a ticket. :param ticket: Ticket object or id :param include_inline_images: Boolean. If `True`, inline image attachments will be returned in each comments' `attachments` field alongside non...
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python
train
53.666667
boundlessgeo/gsconfig
src/geoserver/catalog.py
https://github.com/boundlessgeo/gsconfig/blob/532f561f32b91ea8debea0573c503dd20988bf40/src/geoserver/catalog.py#L618-L669
def add_granule(self, data, store, workspace=None): '''Harvest/add a granule into an existing imagemosaic''' ext = os.path.splitext(data)[-1] if ext == ".zip": type = "file.imagemosaic" upload_data = open(data, 'rb') headers = { "Content-type":...
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Harvest/add a granule into an existing imagemosaic
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python
valid
32.288462
limodou/uliweb
uliweb/contrib/auth/__init__.py
https://github.com/limodou/uliweb/blob/34472f25e4bc0b954a35346672f94e84ef18b076/uliweb/contrib/auth/__init__.py#L90-L125
def set_user_session(user): """ Set user session :param user: user object chould be model instance or dict :return: """ from uliweb import settings, request user_fieldname = settings.get_var('AUTH/GET_AUTH_USER_FIELDNAME', 'id') share_session = settings.get_var('AUTH/AUTH_SHARE...
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Set user session :param user: user object chould be model instance or dict :return:
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python
train
43.305556
googledatalab/pydatalab
solutionbox/structured_data/mltoolbox/_structured_data/trainer/util.py
https://github.com/googledatalab/pydatalab/blob/d9031901d5bca22fe0d5925d204e6698df9852e1/solutionbox/structured_data/mltoolbox/_structured_data/trainer/util.py#L315-L359
def read_examples(input_files, batch_size, shuffle, num_epochs=None): """Creates readers and queues for reading example protos.""" files = [] for e in input_files: for path in e.split(','): files.extend(file_io.get_matching_files(path)) thread_count = multiprocessing.cpu_count() # The minimum numbe...
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Creates readers and queues for reading example protos.
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python
train
35.311111
saltstack/salt
salt/utils/minions.py
https://github.com/saltstack/salt/blob/e8541fd6e744ab0df786c0f76102e41631f45d46/salt/utils/minions.py#L355-L363
def _check_pillar_exact_minions(self, expr, delimiter, greedy): ''' Return the minions found by looking via pillar ''' return self._check_cache_minions(expr, delimiter, greedy, ...
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Return the minions found by looking via pillar
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python
train
43.555556
lowandrew/OLCTools
spadespipeline/quality.py
https://github.com/lowandrew/OLCTools/blob/88aa90ac85f84d0bbeb03e43c29b0a9d36e4ce2a/spadespipeline/quality.py#L695-L712
def run_qaml(self): """ Create and run the GenomeQAML system call """ logging.info('Running GenomeQAML quality assessment') qaml_call = 'classify.py -t {tf} -r {rf}'\ .format(tf=self.qaml_path, rf=self.qaml_report) make_path(self.reportpath...
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Create and run the GenomeQAML system call
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python
train
42.944444
xtrementl/focus
focus/parser/parser.py
https://github.com/xtrementl/focus/blob/cbbbc0b49a7409f9e0dc899de5b7e057f50838e4/focus/parser/parser.py#L312-L322
def _rule_option(self): """ Parses the production rule:: option : NAME value ';' Returns list (name, value_list). """ name = self._get_token(self.RE_NAME) value = self._rule_value() self._expect_token(';') return [name, value]
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python
train
27.090909
beregond/jsonmodels
jsonmodels/utilities.py
https://github.com/beregond/jsonmodels/blob/97a1a6b90a49490fc5a6078f49027055d2e13541/jsonmodels/utilities.py#L60-L90
def compare_schemas(one, two): """Compare two structures that represents JSON schemas. For comparison you can't use normal comparison, because in JSON schema lists DO NOT keep order (and Python lists do), so this must be taken into account during comparison. Note this wont check all configurations...
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python
train
30.774194
costastf/locationsharinglib
_CI/library/patch.py
https://github.com/costastf/locationsharinglib/blob/dcd74b0cdb59b951345df84987238763e50ef282/_CI/library/patch.py#L198-L203
def pathstrip(path, n): """ Strip n leading components from the given path """ pathlist = [path] while os.path.dirname(pathlist[0]) != b'': pathlist[0:1] = os.path.split(pathlist[0]) return b'/'.join(pathlist[n:])
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Strip n leading components from the given path
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python
train
36.666667
chimera0/accel-brain-code
Automatic-Summarization/demo/demo_with_n_gram_japanese_web_page.py
https://github.com/chimera0/accel-brain-code/blob/03661f6f544bed656269fcd4b3c23c9061629daa/Automatic-Summarization/demo/demo_with_n_gram_japanese_web_page.py#L10-L41
def Main(url): ''' Entry Point. Args: url: target url. ''' # The object of Web-Scraping. web_scrape = WebScraping() # Execute Web-Scraping. document = web_scrape.scrape(url) # The object of automatic summarization with N-gram. auto_abstractor = NgramAutoAbstractor...
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python
train
28.09375
Phyks/libbmc
libbmc/bibtex.py
https://github.com/Phyks/libbmc/blob/9ef1a29d2514157d1edd6c13ecbd61b07ae9315e/libbmc/bibtex.py#L43-L51
def write(filename, data): """ Create a new BibTeX file. :param filename: The name of the BibTeX file to write. :param data: A ``bibtexparser.BibDatabase`` object. """ with open(filename, 'w') as fh: fh.write(bibdatabase2bibtex(data))
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Create a new BibTeX file. :param filename: The name of the BibTeX file to write. :param data: A ``bibtexparser.BibDatabase`` object.
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python
train
28.777778
fabioz/PyDev.Debugger
_pydev_imps/_pydev_inspect.py
https://github.com/fabioz/PyDev.Debugger/blob/ed9c4307662a5593b8a7f1f3389ecd0e79b8c503/_pydev_imps/_pydev_inspect.py#L312-L320
def getmoduleinfo(path): """Get the module name, suffix, mode, and module type for a given file.""" filename = os.path.basename(path) suffixes = map(lambda (suffix, mode, mtype): (-len(suffix), suffix, mode, mtype), imp.get_suffixes()) suffixes.sort() # try longest suffixes first, in ...
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Get the module name, suffix, mode, and module type for a given file.
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python
train
52.888889
markfinger/python-js-host
js_host/bin.py
https://github.com/markfinger/python-js-host/blob/7727138c1eae779335d55fb4d7734698225a6322/js_host/bin.py#L78-L109
def spawn_managed_host(config_file, manager, connect_on_start=True): """ Spawns a managed host, if it is not already running """ data = manager.request_host_status(config_file) is_running = data['started'] # Managed hosts run as persistent processes, so it may already be running if is_run...
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Spawns a managed host, if it is not already running
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python
train
26.90625
zikzakmedia/python-mediawiki
mediawiki/wikimarkup/__init__.py
https://github.com/zikzakmedia/python-mediawiki/blob/7c26732efa520e16c35350815ce98cd7610a0bcb/mediawiki/wikimarkup/__init__.py#L690-L707
def decodeTagAttributes(self, text): """docstring for decodeTagAttributes""" attribs = {} if text.strip() == u'': return attribs scanner = _attributePat.scanner(text) match = scanner.search() while match: key, val1, val2, val3, val4 = match.groups() value = val1 or val2 or val3 or val4 if value:...
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docstring for decodeTagAttributes
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python
train
26
aloetesting/aloe_webdriver
aloe_webdriver/util.py
https://github.com/aloetesting/aloe_webdriver/blob/65d847da4bdc63f9c015cb19d4efdee87df8ffad/aloe_webdriver/util.py#L280-L308
def find_button(browser, value): """ Find a button with the given value. Searches for the following different kinds of buttons: <input type="submit"> <input type="reset"> <input type="button"> <input type="image"> <button> <{a,p,div,span,...} role="button"> ...
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Find a button with the given value. Searches for the following different kinds of buttons: <input type="submit"> <input type="reset"> <input type="button"> <input type="image"> <button> <{a,p,div,span,...} role="button"> Returns: an :class:`ElementSelector`
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python
train
21.827586
iqbal-lab-org/cluster_vcf_records
cluster_vcf_records/vcf_record.py
https://github.com/iqbal-lab-org/cluster_vcf_records/blob/0db26af36b6da97a7361364457d2152dc756055c/cluster_vcf_records/vcf_record.py#L402-L410
def to_record_per_alt(self): '''Returns list of vcf_records. One per variant in the ALT column. Does not change INFO/FORMAT etc columns, which means that they are now broken''' record_list = [] for alt in self.ALT: record_list.append(copy.copy(self)) recor...
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Returns list of vcf_records. One per variant in the ALT column. Does not change INFO/FORMAT etc columns, which means that they are now broken
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python
train
40.111111
JensRantil/rewind
rewind/server/eventstores.py
https://github.com/JensRantil/rewind/blob/7f645d20186c1db55cfe53a0310c9fd6292f91ea/rewind/server/eventstores.py#L915-L951
def from_config(config, **options): """Instantiate an `SyncedRotationEventStores` from config. Parameters: config -- the configuration file options read from file(s). **options -- various options given to the specific event store. Shall not be used with this even...
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python
train
40.972973
JamesRamm/longclaw
longclaw/orders/api.py
https://github.com/JamesRamm/longclaw/blob/8bbf2e6d703271b815ec111813c7c5d1d4e4e810/longclaw/orders/api.py#L14-L19
def refund_order(self, request, pk): """Refund the order specified by the pk """ order = Order.objects.get(id=pk) order.refund() return Response(status=status.HTTP_204_NO_CONTENT)
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Refund the order specified by the pk
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python
train
35.666667
PySimpleGUI/PySimpleGUI
PySimpleGUIWx/PySimpleGUIWx.py
https://github.com/PySimpleGUI/PySimpleGUI/blob/08184197f5bd4580ab5e5aca28bdda30f87b86fc/PySimpleGUIWx/PySimpleGUIWx.py#L6768-L6821
def PopupGetFolder(message, title=None, default_path='', no_window=False, size=(None, None), button_color=None, background_color=None, text_color=None, icon=DEFAULT_WINDOW_ICON, font=None, no_titlebar=False, grab_anywhere=False, keep_on_top=False, location=(None, None), initial_fol...
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Display popup with text entry field and browse button. Browse for folder :param message: :param default_path: :param no_window: :param size: :param button_color: :param background_color: :param text_color: :param icon: :param font: :param no_titlebar: :param grab_anywhere: ...
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python
train
36
hanguokai/youku
youku/youku_users.py
https://github.com/hanguokai/youku/blob/b2df060c7dccfad990bcfa289fff68bb77d1e69b/youku/youku_users.py#L115-L129
def create_friendship(self, access_token, user_id=None, user_name=None): """doc: http://open.youku.com/docs/doc?id=28 """ url = 'https://openapi.youku.com/v2/users/friendship/create.json' data = { 'client_id': self.client_id, 'access_toke...
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doc: http://open.youku.com/docs/doc?id=28
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python
train
35.2
SandstoneHPC/sandstone-ide
sandstone/lib/filesystem/handlers.py
https://github.com/SandstoneHPC/sandstone-ide/blob/7a47947fb07281c3e3018042863dc67e7e56dc04/sandstone/lib/filesystem/handlers.py#L56-L66
def _rename(self): """ Called during a PUT request where the action specifies a rename operation. Returns resource URI of the renamed file. """ newname = self.action['newname'] try: newpath = self.fs.rename(self.fp,newname) except OSError: ...
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Called during a PUT request where the action specifies a rename operation. Returns resource URI of the renamed file.
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python
train
33.181818
thespacedoctor/qubits
qubits/cl_utils.py
https://github.com/thespacedoctor/qubits/blob/3c02ace7226389841c6bb838d045c11bed61a3c2/qubits/cl_utils.py#L49-L433
def main(arguments=None): """ *The main function used when ``cl_utils.py`` is run as a single script from the cl, or when installed as a cl command* """ # setup the command-line util settings su = tools( arguments=arguments, docString=__doc__, logLevel="WARNING", opti...
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python
train
40.937662
tanghaibao/goatools
goatools/grouper/wr_sections.py
https://github.com/tanghaibao/goatools/blob/407682e573a108864a79031f8ca19ee3bf377626/goatools/grouper/wr_sections.py#L182-L202
def wr_txt_section_hdrgos(self, fout_txt, sortby=None, prt_section=True): """Write high GO IDs that are actually used to group current set of GO IDs.""" sec2d_go = self.grprobj.get_sections_2d() # lists of GO IDs sec2d_nt = self.get_sections_2dnt(sec2d_go) # lists of GO Grouper namedtuples ...
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Write high GO IDs that are actually used to group current set of GO IDs.
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python
train
54.047619
cackharot/suds-py3
suds/sax/element.py
https://github.com/cackharot/suds-py3/blob/7387ec7806e9be29aad0a711bea5cb3c9396469c/suds/sax/element.py#L369-L386
def replaceChild(self, child, content): """ Replace I{child} with the specified I{content}. @param child: A child element. @type child: L{Element} @param content: An element or collection of elements. @type content: L{Element} or [L{Element},] """ if child...
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Replace I{child} with the specified I{content}. @param child: A child element. @type child: L{Element} @param content: An element or collection of elements. @type content: L{Element} or [L{Element},]
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python
train
36.888889
rpcope1/PythonConfluenceAPI
PythonConfluenceAPI/api.py
https://github.com/rpcope1/PythonConfluenceAPI/blob/b7f0ca2a390f964715fdf3a60b5b0c5ef7116d40/PythonConfluenceAPI/api.py#L691-L705
def get_space_information(self, space_key, expand=None, callback=None): """ Returns information about a space. :param space_key (string): A string containing the key of the space. :param expand (string): OPTIONAL: A comma separated list of properties to expand on the space. Default: Empt...
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Returns information about a space. :param space_key (string): A string containing the key of the space. :param expand (string): OPTIONAL: A comma separated list of properties to expand on the space. Default: Empty. :param callback: OPTIONAL: The callback to execute on the resulting data, before ...
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python
train
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galaxyproject/pulsar
pulsar/managers/queued_external_drmaa.py
https://github.com/galaxyproject/pulsar/blob/9ab6683802884324652da0a9f0808c7eb59d3ab4/pulsar/managers/queued_external_drmaa.py#L91-L108
def _handle_default(value, script_name): """ There are two potential variants of these scripts, the Bash scripts that are meant to be run within PULSAR_ROOT for older-style installs and the binaries created by setup.py as part of a proper pulsar installation. This method first looks for the newer s...
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python
train
37.611111
saltstack/salt
salt/returners/postgres_local_cache.py
https://github.com/saltstack/salt/blob/e8541fd6e744ab0df786c0f76102e41631f45d46/salt/returners/postgres_local_cache.py#L224-L253
def returner(load): ''' Return data to a postgres server ''' conn = _get_conn() if conn is None: return None cur = conn.cursor() sql = '''INSERT INTO salt_returns (fun, jid, return, id, success) VALUES (%s, %s, %s, %s, %s)''' try: ret = six.text_ty...
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Return data to a postgres server
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python
train
25.566667
astrocatalogs/astrocats
astrocats/catalog/catalog.py
https://github.com/astrocatalogs/astrocats/blob/11abc3131c6366ecd23964369e55ff264add7805/astrocats/catalog/catalog.py#L754-L851
def load_stubs(self, log_mem=False): """Load all events in their `stub` (name, alias, etc only) form. Used in `update` mode. """ # Initialize parameter related to diagnostic output of memory usage if log_mem: import psutil process = psutil.Process(os.getp...
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Load all events in their `stub` (name, alias, etc only) form. Used in `update` mode.
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python
train
43.285714
JetBrains/teamcity-messages
teamcity/pylint_reporter.py
https://github.com/JetBrains/teamcity-messages/blob/44f6d1fde33a48547a8f9fe31814522347a87b39/teamcity/pylint_reporter.py#L64-L71
def display_reports(self, layout): """Issues the final PyLint score as a TeamCity build statistic value""" try: score = self.linter.stats['global_note'] except (AttributeError, KeyError): pass else: self.tc.message('buildStatisticValue', key='PyLintSco...
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python
train
41.875
saltstack/salt
salt/modules/pkgng.py
https://github.com/saltstack/salt/blob/e8541fd6e744ab0df786c0f76102e41631f45d46/salt/modules/pkgng.py#L129-L141
def _contextkey(jail=None, chroot=None, root=None, prefix='pkg.list_pkgs'): ''' As this module is designed to manipulate packages in jails and chroots, use the passed jail/chroot to ensure that a key in the __context__ dict that is unique to that jail/chroot is used. ''' if jail: return ...
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As this module is designed to manipulate packages in jails and chroots, use the passed jail/chroot to ensure that a key in the __context__ dict that is unique to that jail/chroot is used.
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python
train
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