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BernardFW/bernard
src/bernard/platforms/facebook/platform.py
https://github.com/BernardFW/bernard/blob/9c55703e5ffe5717c9fa39793df59dbfa5b4c5ab/src/bernard/platforms/facebook/platform.py#L472-L482
async def _deferred_init(self): """ Run those things in a sepearate tasks as they are not required for the bot to work and they take a lot of time to run. """ await self._check_subscriptions() await self._set_whitelist() await self._set_get_started() awai...
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Run those things in a sepearate tasks as they are not required for the bot to work and they take a lot of time to run.
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python
train
dhylands/rshell
rshell/main.py
https://github.com/dhylands/rshell/blob/a92a8fa8074ac792241c83c640a51b394667c324/rshell/main.py#L2326-L2374
def do_ls(self, line): """ls [-a] [-l] [FILE|DIRECTORY|PATTERN]... PATTERN supports * ? [seq] [!seq] Unix filename matching List directory contents. """ args = self.line_to_args(line) if len(args.filenames) == 0: args.filenames = ['.'] for idx, fn i...
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ls [-a] [-l] [FILE|DIRECTORY|PATTERN]... PATTERN supports * ? [seq] [!seq] Unix filename matching List directory contents.
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python
train
caseyjlaw/rtpipe
rtpipe/RT.py
https://github.com/caseyjlaw/rtpipe/blob/ac33e4332cf215091a63afbb3137850876d73ec0/rtpipe/RT.py#L1039-L1048
def correct_dm(d, dm, blrange): """ Dedisperses data into data_resamp Drops edges, since it assumes that data is read with overlapping chunks in time. """ data = numpyview(data_mem, 'complex64', datashape(d)) data_resamp = numpyview(data_resamp_mem, 'complex64', datashape(d)) bl0,bl1 = blrange ...
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Dedisperses data into data_resamp Drops edges, since it assumes that data is read with overlapping chunks in time.
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python
train
smdabdoub/phylotoast
phylotoast/biom_calc.py
https://github.com/smdabdoub/phylotoast/blob/0b74ef171e6a84761710548501dfac71285a58a3/phylotoast/biom_calc.py#L95-L135
def raw_abundance(biomf, sampleIDs=None, sample_abd=True): """ Calculate the total number of sequences in each OTU or SampleID. :type biomf: A BIOM file. :param biomf: OTU table format. :type sampleIDs: List :param sampleIDs: A list of column id's from BIOM format OTU table. By default, the ...
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Calculate the total number of sequences in each OTU or SampleID. :type biomf: A BIOM file. :param biomf: OTU table format. :type sampleIDs: List :param sampleIDs: A list of column id's from BIOM format OTU table. By default, the list has been set to None. :type sample_abd: B...
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python
train
brainiak/brainiak
brainiak/funcalign/rsrm.py
https://github.com/brainiak/brainiak/blob/408f12dec2ff56559a26873a848a09e4c8facfeb/brainiak/funcalign/rsrm.py#L304-L343
def _init_transforms(self, subjs, voxels, features, random_state): """Initialize the mappings (Wi) with random orthogonal matrices. Parameters ---------- subjs : int The number of subjects. voxels : list of int A list with the number of voxels per subjec...
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Initialize the mappings (Wi) with random orthogonal matrices. Parameters ---------- subjs : int The number of subjects. voxels : list of int A list with the number of voxels per subject. features : int The number of features in the model. ...
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python
train
vivangkumar/uberpy
uberpy/api.py
https://github.com/vivangkumar/uberpy/blob/abc62ccb5399424eb5690f12c392ab2dbd9d96e0/uberpy/api.py#L58-L91
def check_status(content, response): """ Check the response that is returned for known exceptions and errors. :param response: Response that is returned from the call. :raise: MalformedRequestException if `response.status` is 400 UnauthorisedException if `response.statu...
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python
valid
urtdevs/yaurtww
yaurtww/manifest.py
https://github.com/urtdevs/yaurtww/blob/842fbd1fb5d32c2be89df471591b70c767aebd14/yaurtww/manifest.py#L14-L23
def _parse_version(self, line): """ There's a magic suffix to the release version, currently it's -03, but it increments seemingly randomly. """ version_string = line.split(' ')[1] version_list = version_string.split('.') major_version = ''.join([version_list[0], ...
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python
train
inveniosoftware/invenio-search
examples/app.py
https://github.com/inveniosoftware/invenio-search/blob/19c073d608d4c811f1c5aecb6622402d39715228/examples/app.py#L106-L119
def index(): """Query Elasticsearch using Invenio query syntax.""" page = request.values.get('page', 1, type=int) size = request.values.get('size', 2, type=int) search = ExampleSearch()[(page - 1) * size:page * size] if 'q' in request.values: search = search.query(QueryString(query=request.v...
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Query Elasticsearch using Invenio query syntax.
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python
train
sdispater/orator
orator/orm/scopes/soft_deleting.py
https://github.com/sdispater/orator/blob/bd90bf198ee897751848f9a92e49d18e60a74136/orator/orm/scopes/soft_deleting.py#L10-L22
def apply(self, builder, model): """ Apply the scope to a given query builder. :param builder: The query builder :type builder: orator.orm.builder.Builder :param model: The model :type model: orator.orm.Model """ builder.where_null(model.get_qualified_de...
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Apply the scope to a given query builder. :param builder: The query builder :type builder: orator.orm.builder.Builder :param model: The model :type model: orator.orm.Model
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python
train
adafruit/Adafruit_Python_MPR121
Adafruit_MPR121/MPR121.py
https://github.com/adafruit/Adafruit_Python_MPR121/blob/86360b80186617e0056d5bd5279bda000978d92c/Adafruit_MPR121/MPR121.py#L160-L165
def filtered_data(self, pin): """Return filtered data register value for the provided pin (0-11). Useful for debugging. """ assert pin >= 0 and pin < 12, 'pin must be between 0-11 (inclusive)' return self._i2c_retry(self._device.readU16LE, MPR121_FILTDATA_0L + pin*2)
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Return filtered data register value for the provided pin (0-11). Useful for debugging.
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python
train
blockadeio/analyst_toolbench
blockade/cli/aws_serverless.py
https://github.com/blockadeio/analyst_toolbench/blob/159b6f8cf8a91c5ff050f1579636ea90ab269863/blockade/cli/aws_serverless.py#L552-L589
def remove_s3_bucket(): """Remove the Blockade bucket.""" logger.debug("[#] Removing S3 bucket") client = boto3.client("s3", region_name=PRIMARY_REGION) buckets = client.list_buckets() matches = [x for x in buckets.get('Buckets', list()) if x['Name'].startswith(S3_BUCKET_NAME)] if...
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Remove the Blockade bucket.
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python
train
michaelpb/omnic
omnic/cli/commandparser.py
https://github.com/michaelpb/omnic/blob/1111cfd73c9dc1955afe42d9cf2a468c46f83cd6/omnic/cli/commandparser.py#L16-L27
def gen_subcommand_help(self): ''' Generates s ''' commands = sorted(self.subcommands.items(), key=lambda i: i[0]) return '\n'.join( '%s %s' % ( subcommand.ljust(15), textwrap.shorten(description, width=61), ) fo...
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Generates s
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python
train
pypa/pipenv
pipenv/patched/notpip/_vendor/html5lib/_inputstream.py
https://github.com/pypa/pipenv/blob/cae8d76c210b9777e90aab76e9c4b0e53bb19cde/pipenv/patched/notpip/_vendor/html5lib/_inputstream.py#L569-L581
def detectEncodingMeta(self): """Report the encoding declared by the meta element """ buffer = self.rawStream.read(self.numBytesMeta) assert isinstance(buffer, bytes) parser = EncodingParser(buffer) self.rawStream.seek(0) encoding = parser.getEncoding() i...
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Report the encoding declared by the meta element
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python
train
OCA/openupgradelib
openupgradelib/openupgrade.py
https://github.com/OCA/openupgradelib/blob/b220b6498075d62c1b64073cc934513a465cfd85/openupgradelib/openupgrade.py#L653-L670
def rename_xmlids(cr, xmlids_spec): """ Rename XML IDs. Typically called in the pre script. One usage example is when an ID changes module. In OpenERP 6 for example, a number of res_groups IDs moved to module base from other modules ( although they were still being defined in their respective module...
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Rename XML IDs. Typically called in the pre script. One usage example is when an ID changes module. In OpenERP 6 for example, a number of res_groups IDs moved to module base from other modules ( although they were still being defined in their respective module). :param xmlids_spec: a list of tuples (ol...
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python
train
ozak/georasters
georasters/georasters.py
https://github.com/ozak/georasters/blob/0612bd91bb2a2cb2f1d59ba89c1ff131dae27d70/georasters/georasters.py#L1110-L1190
def distance(self, sources, destinations, x='x', y='y', isolation=True, export_raster=False, export_shape=False, routes=False, path='./'): """ Compute cost distance measured from each start point to all end points. The function returns the distances between the start point and t...
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Compute cost distance measured from each start point to all end points. The function returns the distances between the start point and the end points as a Pandas dataframe. Additionally, for each start point it computes the level of isolation, i.e. its average travel distance to all other locati...
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python
train
mitsei/dlkit
dlkit/records/assessment/basic/drag_and_drop_records.py
https://github.com/mitsei/dlkit/blob/445f968a175d61c8d92c0f617a3c17dc1dc7c584/dlkit/records/assessment/basic/drag_and_drop_records.py#L303-L310
def _init_map(self): """stub""" self.my_osid_object_form._my_map['zoneConditions'] = \ self._zone_conditions_metadata['default_object_values'][0] self.my_osid_object_form._my_map['coordinateConditions'] = \ self._coordinate_conditions_metadata['default_object_values'][0] ...
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stub
[ "stub" ]
python
train
fracpete/python-weka-wrapper3
python/weka/flow/base.py
https://github.com/fracpete/python-weka-wrapper3/blob/d850ab1bdb25fbd5a8d86e99f34a397975425838/python/weka/flow/base.py#L294-L305
def storagehandler(self): """ Returns the storage handler available to thise actor. :return: the storage handler, None if not available """ if isinstance(self, StorageHandler): return self elif self.parent is not None: return self.parent.storageha...
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Returns the storage handler available to thise actor. :return: the storage handler, None if not available
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python
train
PmagPy/PmagPy
dialogs/grid_frame2.py
https://github.com/PmagPy/PmagPy/blob/c7984f8809bf40fe112e53dcc311a33293b62d0b/dialogs/grid_frame2.py#L364-L399
def remove_col_label(self, event):#, include_pmag=True): """ check to see if column is required if it is not, delete it from grid """ er_possible_headers = self.grid_headers[self.grid_type]['er'][2] pmag_possible_headers = self.grid_headers[self.grid_type]['pmag'][2] ...
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check to see if column is required if it is not, delete it from grid
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python
train
nerdvegas/rez
src/rez/utils/filesystem.py
https://github.com/nerdvegas/rez/blob/1d3b846d53b5b5404edfe8ddb9083f9ceec8c5e7/src/rez/utils/filesystem.py#L76-L112
def make_path_writable(path): """Temporarily make `path` writable, if possible. Does nothing if: - config setting 'make_package_temporarily_writable' is False; - this can't be done (eg we don't own `path`). Args: path (str): Path to make temporarily writable """ from rez.co...
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python
train
ethereum/py-evm
eth/db/journal.py
https://github.com/ethereum/py-evm/blob/58346848f076116381d3274bbcea96b9e2cfcbdf/eth/db/journal.py#L379-L408
def commit(self, changeset_id: uuid.UUID) -> None: """ Commits a given changeset. This merges the given changeset and all subsequent changesets into the previous changeset giving precidence to later changesets in case of any conflicting keys. If this is the base changeset then a...
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Commits a given changeset. This merges the given changeset and all subsequent changesets into the previous changeset giving precidence to later changesets in case of any conflicting keys. If this is the base changeset then all changes will be written to the underlying database and the J...
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python
train
google/grumpy
third_party/pypy/_sre.py
https://github.com/google/grumpy/blob/3ec87959189cfcdeae82eb68a47648ac25ceb10b/third_party/pypy/_sre.py#L1068-L1077
def check_charset(self, ctx, char): """Checks whether a character matches set of arbitrary length. Assumes the code pointer is at the first member of the set.""" self.set_dispatcher.reset(char) save_position = ctx.code_position result = None while result is None: ...
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python
valid
stbraun/fuzzing
features/steps/ft_fuzzer.py
https://github.com/stbraun/fuzzing/blob/974a64472732d4e40db919d242149bf0856fe199/features/steps/ft_fuzzer.py#L110-L116
def step_impl09(context): """Create application list. :param context: test context. """ assert context.table, "ENSURE: table is provided." context.app_list = [row['application'] for row in context.table.rows]
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Create application list. :param context: test context.
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python
train
Holzhaus/python-cmuclmtk
cmuclmtk/__init__.py
https://github.com/Holzhaus/python-cmuclmtk/blob/67a5c6713c497ca644ea1c697a70e8d930c9d4b4/cmuclmtk/__init__.py#L394-L446
def idngram2lm(idngram_file, vocab_file, output_file, context_file=None, vocab_type=1, oov_fraction=0.5, four_byte_counts=False, min_unicount=0, zeroton_fraction=False, n=3, verbosity=2, arpa_output=True, ascii_input=False): """ Takes an idngram-file (in either binary (by default) or ASCII (if specified) fo...
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Takes an idngram-file (in either binary (by default) or ASCII (if specified) format), a vocabulary file, and (optionally) a context cues file. Additional command line parameters will specify the cutoffs, the discounting strategy and parameters, etc. It outputs a language model, in either binary format (to be read by ev...
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python
train
mozilla-releng/scriptworker
scriptworker/ed25519.py
https://github.com/mozilla-releng/scriptworker/blob/8e97bbd83b9b578565ec57904c966dd6ae4ef0ae/scriptworker/ed25519.py#L86-L100
def ed25519_private_key_to_string(key): """Convert an ed25519 private key to a base64-encoded string. Args: key (Ed25519PrivateKey): the key to write to the file. Returns: str: the key representation as a str """ return base64.b64encode(key.private_bytes( encoding=serializ...
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Convert an ed25519 private key to a base64-encoded string. Args: key (Ed25519PrivateKey): the key to write to the file. Returns: str: the key representation as a str
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python
train
StackStorm/pybind
pybind/nos/v6_0_2f/overlay_gateway/site/__init__.py
https://github.com/StackStorm/pybind/blob/44c467e71b2b425be63867aba6e6fa28b2cfe7fb/pybind/nos/v6_0_2f/overlay_gateway/site/__init__.py#L144-L169
def _set_tunnel_dst(self, v, load=False): """ Setter method for tunnel_dst, mapped from YANG variable /overlay_gateway/site/tunnel_dst (list) If this variable is read-only (config: false) in the source YANG file, then _set_tunnel_dst is considered as a private method. Backends looking to populate th...
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Setter method for tunnel_dst, mapped from YANG variable /overlay_gateway/site/tunnel_dst (list) If this variable is read-only (config: false) in the source YANG file, then _set_tunnel_dst is considered as a private method. Backends looking to populate this variable should do so via calling thisObj._set_...
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python
train
junzis/pyModeS
pyModeS/decoder/adsb.py
https://github.com/junzis/pyModeS/blob/8cd5655a04b08171a9ad5f1ffd232b7e0178ea53/pyModeS/decoder/adsb.py#L88-L114
def position_with_ref(msg, lat_ref, lon_ref): """Decode position with only one message, knowing reference nearby location, such as previously calculated location, ground station, or airport location, etc. Works with both airborne and surface position messages. The reference position shall be with in...
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Decode position with only one message, knowing reference nearby location, such as previously calculated location, ground station, or airport location, etc. Works with both airborne and surface position messages. The reference position shall be with in 180NM (airborne) or 45NM (surface) of the true p...
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python
train
numenta/htmresearch
htmresearch/frameworks/layers/physical_objects.py
https://github.com/numenta/htmresearch/blob/70c096b09a577ea0432c3f3bfff4442d4871b7aa/htmresearch/frameworks/layers/physical_objects.py#L447-L455
def _sampleFromFaces(self): """ We start by sampling a dimension to "max out", then sample the sign and the other dimensions' values. """ coordinates = [random.uniform(-1, 1) * dim / 2. for dim in self.dimensions] dim = random.choice(range(self.dimension)) coordinates[dim] = self.dimensions[...
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We start by sampling a dimension to "max out", then sample the sign and the other dimensions' values.
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python
train
saltstack/salt
salt/cloud/clouds/vmware.py
https://github.com/saltstack/salt/blob/e8541fd6e744ab0df786c0f76102e41631f45d46/salt/cloud/clouds/vmware.py#L4553-L4620
def shutdown_host(kwargs=None, call=None): ''' Shut down the specified host system in this VMware environment .. note:: If the host system is not in maintenance mode, it will not be shut down. If you want to shut down the host system regardless of whether it is in maintenance mode, ...
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Shut down the specified host system in this VMware environment .. note:: If the host system is not in maintenance mode, it will not be shut down. If you want to shut down the host system regardless of whether it is in maintenance mode, set ``force=True``. Default is ``force=False``. C...
[ "Shut", "down", "the", "specified", "host", "system", "in", "this", "VMware", "environment" ]
python
train
pyviz/holoviews
holoviews/plotting/bokeh/renderer.py
https://github.com/pyviz/holoviews/blob/ae0dd2f3de448b0ca5e9065aabd6ef8d84c7e655/holoviews/plotting/bokeh/renderer.py#L123-L137
def get_plot(self_or_cls, obj, doc=None, renderer=None, **kwargs): """ Given a HoloViews Viewable return a corresponding plot instance. Allows supplying a document attach the plot to, useful when combining the bokeh model with another plot. """ if doc is None: ...
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Given a HoloViews Viewable return a corresponding plot instance. Allows supplying a document attach the plot to, useful when combining the bokeh model with another plot.
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python
train
springload/wagtaildraftail
wagtaildraftail/widgets.py
https://github.com/springload/wagtaildraftail/blob/87f1ae3ade493c00daff021394051aa656136c10/wagtaildraftail/widgets.py#L75-L85
def intercept_image_formats(self, options): """ Load all image formats if needed. """ if 'entityTypes' in options: for entity in options['entityTypes']: if entity['type'] == ENTITY_TYPES.IMAGE and 'imageFormats' in entity: if entity['imageF...
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Load all image formats if needed.
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python
train
devoperate/chronos
chronos/helpers.py
https://github.com/devoperate/chronos/blob/5ae6047c4f13db9f5e85a0c72a3dc47f05a8d7bd/chronos/helpers.py#L65-L79
def git_tag_to_semver(git_tag: str) -> SemVer: """ :git_tag: A string representation of a Git tag. Searches a Git tag's string representation for a SemVer, and returns that as a SemVer object. """ pattern = re.compile(r'[0-9]+\.[0-9]+\.[0-9]+$') match = pattern.search(git_tag) if match:...
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:git_tag: A string representation of a Git tag. Searches a Git tag's string representation for a SemVer, and returns that as a SemVer object.
[ ":", "git_tag", ":", "A", "string", "representation", "of", "a", "Git", "tag", "." ]
python
train
PonteIneptique/collatinus-python
pycollatinus/lemmatiseur.py
https://github.com/PonteIneptique/collatinus-python/blob/fca37b0b77bc60f47d3c24ab42f6d0bdca6ba0f5/pycollatinus/lemmatiseur.py#L211-L225
def _lemmatise_contractions(self, f, *args, **kwargs): """ Lemmatise un mot f avec sa contraction :param f: Mot à lemmatiser :yield: Match formated like in _lemmatise() """ fd = f for contraction, decontraction in self._contractions.items(): if fd.endswith(co...
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Lemmatise un mot f avec sa contraction :param f: Mot à lemmatiser :yield: Match formated like in _lemmatise()
[ "Lemmatise", "un", "mot", "f", "avec", "sa", "contraction" ]
python
train
arve0/leicascanningtemplate
leicascanningtemplate/template.py
https://github.com/arve0/leicascanningtemplate/blob/053e075d3bed11e335b61ce048c47067b8e9e921/leicascanningtemplate/template.py#L370-L415
def write(self, filename=None): """Save template to xml. Before saving template will update date, start position, well positions, and counts. Parameters ---------- filename : str If not set, XML will be written to self.filename. """ if not filename: ...
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Save template to xml. Before saving template will update date, start position, well positions, and counts. Parameters ---------- filename : str If not set, XML will be written to self.filename.
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python
train
MillionIntegrals/vel
vel/util/intepolate.py
https://github.com/MillionIntegrals/vel/blob/e0726e1f63742b728966ccae0c8b825ea0ba491a/vel/util/intepolate.py#L53-L55
def interpolate_single(start, end, coefficient, how='linear'): """ Interpolate single value between start and end in given number of steps """ return INTERP_SINGLE_DICT[how](start, end, coefficient)
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Interpolate single value between start and end in given number of steps
[ "Interpolate", "single", "value", "between", "start", "and", "end", "in", "given", "number", "of", "steps" ]
python
train
tensorflow/tensor2tensor
tensor2tensor/trax/inputs.py
https://github.com/tensorflow/tensor2tensor/blob/272500b6efe353aeb638d2745ed56e519462ca31/tensor2tensor/trax/inputs.py#L262-L316
def batch_fun(dataset, training, shapes, target_names, num_devices, batch_size_per_device=32, batch_size=None, eval_batch_size=32, bucket_length=32, buckets=None, batch_shuffle_size=128, max_eval_length=None): """Batching function.""" del target_names # Batch size is batc...
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Batching function.
[ "Batching", "function", "." ]
python
train
cbclab/MOT
mot/mcmc_diagnostics.py
https://github.com/cbclab/MOT/blob/fb3243b65025705842e82704705c00902f9a35af/mot/mcmc_diagnostics.py#L153-L194
def get_auto_correlation_time(chain, max_lag=None): r"""Compute the auto correlation time up to the given lag for the given chain (1d vector). This will halt when the maximum lag :math:`m` is reached or when the sum of two consecutive lags for any odd lag is lower or equal to zero. The auto correlatio...
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r"""Compute the auto correlation time up to the given lag for the given chain (1d vector). This will halt when the maximum lag :math:`m` is reached or when the sum of two consecutive lags for any odd lag is lower or equal to zero. The auto correlation sum is estimated as: .. math:: \tau = 1 ...
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python
train
Valuehorizon/valuehorizon-companies
companies/models.py
https://github.com/Valuehorizon/valuehorizon-companies/blob/5366e230da69ee30fcdc1bf4beddc99310f6b767/companies/models.py#L386-L398
def save(self, *args, **kwargs): """ Generate a name, and ensure amount is less than or equal to 100 """ self.name = str(self.parent.name) + " - " + str(self.child.name) + " - " + str(self.ownership_type) if self.amount > 100: raise ValueError("Ownership amoun...
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Generate a name, and ensure amount is less than or equal to 100
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python
train
emory-libraries/eulxml
eulxml/forms/xmlobject.py
https://github.com/emory-libraries/eulxml/blob/17d71c7d98c0cebda9932b7f13e72093805e1fe2/eulxml/forms/xmlobject.py#L595-L609
def _update_subinstance(self, name, subform): """Save bound data for a single subform into the XmlObject model instance.""" old_subinstance = getattr(self.instance, name) new_subinstance = subform.update_instance() # if our instance previously had no node for the subform AND the...
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Save bound data for a single subform into the XmlObject model instance.
[ "Save", "bound", "data", "for", "a", "single", "subform", "into", "the", "XmlObject", "model", "instance", "." ]
python
train
cogniteev/docido-python-sdk
docido_sdk/toolbox/decorators.py
https://github.com/cogniteev/docido-python-sdk/blob/58ecb6c6f5757fd40c0601657ab18368da7ddf33/docido_sdk/toolbox/decorators.py#L66-L83
def reraise(clazz): """ Decorator catching every exception that might be raised by wrapped function and raise another exception instead. Exception initially raised is passed in first argument of the raised exception. :param: Exception class: clazz: Python exception class to raise """ ...
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Decorator catching every exception that might be raised by wrapped function and raise another exception instead. Exception initially raised is passed in first argument of the raised exception. :param: Exception class: clazz: Python exception class to raise
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python
train
project-rig/rig
rig/machine_control/machine_controller.py
https://github.com/project-rig/rig/blob/3a3e053d3214899b6d68758685835de0afd5542b/rig/machine_control/machine_controller.py#L1127-L1170
def sdram_alloc_as_filelike(self, size, tag=0, x=Required, y=Required, app_id=Required, clear=False): """Like :py:meth:`.sdram_alloc` but returns a :py:class:`file-like object <.MemoryIO>` which allows safe reading and writing to the block that is allocated. ...
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Like :py:meth:`.sdram_alloc` but returns a :py:class:`file-like object <.MemoryIO>` which allows safe reading and writing to the block that is allocated. Returns ------- :py:class:`.MemoryIO` File-like object which allows accessing the newly allocated region ...
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python
train
belbio/bel
bel/lang/belobj.py
https://github.com/belbio/bel/blob/60333e8815625b942b4836903f3b618cf44b3771/bel/lang/belobj.py#L339-L372
def compute_edges( self, rules: List[str] = None, ast_result=False, fmt="medium" ) -> List[Mapping[str, Any]]: """Computed edges from primary BEL statement Takes an AST and generates all computed edges based on BEL Specification YAML computed signatures. Will run only the list of co...
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Computed edges from primary BEL statement Takes an AST and generates all computed edges based on BEL Specification YAML computed signatures. Will run only the list of computed edge rules if given. Args: rules (list): a list of rules to filter; only the rules in this list will be ap...
[ "Computed", "edges", "from", "primary", "BEL", "statement" ]
python
train
johnhw/pyspacenavigator
spacenavigator.py
https://github.com/johnhw/pyspacenavigator/blob/518bd89f94b83156f12dae261f95c517fb78ebe4/spacenavigator.py#L257-L270
def list_devices(): """Return a list of the supported devices connected Returns: A list of string names of the devices supported which were found. Empty if no supported devices found """ devices = [] all_hids = hid.find_all_hid_devices() if all_hids: for index, device in e...
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Return a list of the supported devices connected Returns: A list of string names of the devices supported which were found. Empty if no supported devices found
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python
train
markovmodel/PyEMMA
pyemma/util/discrete_trajectories.py
https://github.com/markovmodel/PyEMMA/blob/5c3124398217de05ba5ce9c8fb01519222481ab8/pyemma/util/discrete_trajectories.py#L144-L177
def count_states(dtrajs, ignore_negative=False): r"""returns a histogram count Parameters ---------- dtrajs : array_like or list of array_like Discretized trajectory or list of discretized trajectories ignore_negative, bool, default=False Ignore negative elements. By default, a nega...
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r"""returns a histogram count Parameters ---------- dtrajs : array_like or list of array_like Discretized trajectory or list of discretized trajectories ignore_negative, bool, default=False Ignore negative elements. By default, a negative element will cause an exception Ret...
[ "r", "returns", "a", "histogram", "count" ]
python
train
valentinalexeev/pwaqi
pwaqi/__init__.py
https://github.com/valentinalexeev/pwaqi/blob/81a1fa1ad87be7ba015c1cb07c52c7760ca99d8c/pwaqi/__init__.py#L31-L41
def get_location_observation(lat, lng, token): """Lookup observations by geo coordinates.""" req = requests.get( API_ENDPOINT_GEO % (lat, lng), params={ 'token': token }) if req.status_code == 200 and req.json()["status"] == "ok": return parse_observation_respons...
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Lookup observations by geo coordinates.
[ "Lookup", "observations", "by", "geo", "coordinates", "." ]
python
test
ladybug-tools/ladybug
ladybug/sunpath.py
https://github.com/ladybug-tools/ladybug/blob/c08b7308077a48d5612f644943f92d5b5dade583/ladybug/sunpath.py#L127-L131
def is_daylight_saving_hour(self, datetime): """Check if a datetime is a daylight saving time.""" if not self.daylight_saving_period: return False return self.daylight_saving_period.isTimeIncluded(datetime.hoy)
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Check if a datetime is a daylight saving time.
[ "Check", "if", "a", "datetime", "is", "a", "daylight", "saving", "time", "." ]
python
train
chrisrink10/basilisp
src/basilisp/lang/compiler/parser.py
https://github.com/chrisrink10/basilisp/blob/3d82670ee218ec64eb066289c82766d14d18cc92/src/basilisp/lang/compiler/parser.py#L1788-L1876
def __resolve_namespaced_symbol( # pylint: disable=too-many-branches ctx: ParserContext, form: sym.Symbol ) -> Union[MaybeClass, MaybeHostForm, VarRef]: """Resolve a namespaced symbol into a Python name or Basilisp Var.""" assert form.ns is not None if form.ns == ctx.current_ns.name: v = ctx.c...
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Resolve a namespaced symbol into a Python name or Basilisp Var.
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python
test
Azure/azure-sdk-for-python
azure-servicemanagement-legacy/azure/servicemanagement/servicemanagementservice.py
https://github.com/Azure/azure-sdk-for-python/blob/d7306fde32f60a293a7567678692bdad31e4b667/azure-servicemanagement-legacy/azure/servicemanagement/servicemanagementservice.py#L1837-L1855
def delete_dns_server(self, service_name, deployment_name, dns_server_name): ''' Deletes a DNS server from a deployment. service_name: The name of the service. deployment_name: The name of the deployment. dns_server_name: Name of the DNS serve...
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Deletes a DNS server from a deployment. service_name: The name of the service. deployment_name: The name of the deployment. dns_server_name: Name of the DNS server that you want to delete.
[ "Deletes", "a", "DNS", "server", "from", "a", "deployment", "." ]
python
test
woolfson-group/isambard
isambard/external_programs/dssp.py
https://github.com/woolfson-group/isambard/blob/ebc33b48a28ad217e18f93b910dfba46e6e71e07/isambard/external_programs/dssp.py#L180-L220
def extract_helices_dssp(in_pdb): """Uses DSSP to find alpha-helices and extracts helices from a pdb file. Returns a length 3 list with a helix id, the chain id and a dict containing the coordinates of each residues CA. Parameters ---------- in_pdb : string Path to a PDB file. """ ...
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Uses DSSP to find alpha-helices and extracts helices from a pdb file. Returns a length 3 list with a helix id, the chain id and a dict containing the coordinates of each residues CA. Parameters ---------- in_pdb : string Path to a PDB file.
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python
train
aouyar/PyMunin
pysysinfo/system.py
https://github.com/aouyar/PyMunin/blob/4f58a64b6b37c85a84cc7e1e07aafaa0321b249d/pysysinfo/system.py#L98-L118
def getProcessStats(self): """Return stats for running and blocked processes, forks, context switches and interrupts. @return: Dictionary of stats. """ info_dict = {} try: fp = open(cpustatFile, 'r') data = fp.read() ...
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Return stats for running and blocked processes, forks, context switches and interrupts. @return: Dictionary of stats.
[ "Return", "stats", "for", "running", "and", "blocked", "processes", "forks", "context", "switches", "and", "interrupts", "." ]
python
train
siznax/wptools
wptools/utils.py
https://github.com/siznax/wptools/blob/100eaea585c34aa9ad87a9eda8982bb4898f6ec9/wptools/utils.py#L110-L115
def stderr(msg, silent=False): """ write msg to stderr if not silent """ if not silent: print(msg, file=sys.stderr)
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write msg to stderr if not silent
[ "write", "msg", "to", "stderr", "if", "not", "silent" ]
python
train
freakboy3742/pyxero
xero/auth.py
https://github.com/freakboy3742/pyxero/blob/5566f17fa06ed1f2fb9426c112951a72276b0f9a/xero/auth.py#L165-L177
def _init_oauth(self, oauth_token, oauth_token_secret): "Store and initialize a verified set of OAuth credentials" self.oauth_token = oauth_token self.oauth_token_secret = oauth_token_secret self._oauth = OAuth1( self.consumer_key, client_secret=self.consumer_sec...
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Store and initialize a verified set of OAuth credentials
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python
train
apple/turicreate
deps/src/boost_1_68_0/tools/build/src/util/regex.py
https://github.com/apple/turicreate/blob/74514c3f99e25b46f22c6e02977fe3da69221c2e/deps/src/boost_1_68_0/tools/build/src/util/regex.py#L11-L27
def transform (list, pattern, indices = [1]): """ Matches all elements of 'list' agains the 'pattern' and returns a list of the elements indicated by indices of all successfull matches. If 'indices' is omitted returns a list of first paranthethised groups of all successfull matches. ...
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Matches all elements of 'list' agains the 'pattern' and returns a list of the elements indicated by indices of all successfull matches. If 'indices' is omitted returns a list of first paranthethised groups of all successfull matches.
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python
train
pytroll/satpy
satpy/readers/grib.py
https://github.com/pytroll/satpy/blob/1f21d20ac686b745fb0da9b4030d139893e066dd/satpy/readers/grib.py#L207-L217
def get_area_def(self, dsid): """Get area definition for message. If latlong grid then convert to valid eqc grid. """ msg = self._get_message(self._msg_datasets[dsid]) try: return self._area_def_from_msg(msg) except (RuntimeError, KeyError): rais...
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Get area definition for message. If latlong grid then convert to valid eqc grid.
[ "Get", "area", "definition", "for", "message", "." ]
python
train
moonso/interval_tree
interval_tree/interval_tree.py
https://github.com/moonso/interval_tree/blob/c588177f5bd90bd9e2f1447216c78b024353f7a1/interval_tree/interval_tree.py#L64-L97
def recursive_build_tree(self, intervals): """ recursively builds a BST based on the elementary intervals. each node is an array: [interval value, left descendent nodes, right descendent nodes, [ids]]. nodes with no descendents have a -1 value in left/right descendent positions. ...
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recursively builds a BST based on the elementary intervals. each node is an array: [interval value, left descendent nodes, right descendent nodes, [ids]]. nodes with no descendents have a -1 value in left/right descendent positions. for example, a node with two empty descendents: [5...
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python
train
postlund/pyatv
pyatv/conf.py
https://github.com/postlund/pyatv/blob/655dfcda4e2f9d1c501540e18da4f480d8bf0e70/pyatv/conf.py#L25-L35
def add_service(self, service): """Add a new service. If the service already exists, it will be replaced. """ if service.protocol in self._services: existing = self._services[service.protocol] if not existing.superseeded_by(service): return ...
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Add a new service. If the service already exists, it will be replaced.
[ "Add", "a", "new", "service", "." ]
python
train
mlperf/training
reinforcement/tensorflow/minigo/oneoffs/validate_misc.py
https://github.com/mlperf/training/blob/1c6ae725a81d15437a2b2df05cac0673fde5c3a4/reinforcement/tensorflow/minigo/oneoffs/validate_misc.py#L22-L43
def validate_examples(example_file): """Validate that examples are well formed. Pi should sum to 1.0 value should be {-1,1} Usage: validate_examples("../data/300.tfrecord.zz") """ def test_example(raw): example = tf.train.Example() example.ParseFromString(raw) ...
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Validate that examples are well formed. Pi should sum to 1.0 value should be {-1,1} Usage: validate_examples("../data/300.tfrecord.zz")
[ "Validate", "that", "examples", "are", "well", "formed", "." ]
python
train
jab/bidict
bidict/_base.py
https://github.com/jab/bidict/blob/1a1ba9758651aed9c4f58384eff006d2e2ad6835/bidict/_base.py#L241-L293
def _dedup_item(self, key, val, on_dup): """ Check *key* and *val* for any duplication in self. Handle any duplication as per the duplication policies given in *on_dup*. (key, val) already present is construed as a no-op, not a duplication. If duplication is found and the corr...
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Check *key* and *val* for any duplication in self. Handle any duplication as per the duplication policies given in *on_dup*. (key, val) already present is construed as a no-op, not a duplication. If duplication is found and the corresponding duplication policy is :attr:`~bidict.RAISE`...
[ "Check", "*", "key", "*", "and", "*", "val", "*", "for", "any", "duplication", "in", "self", "." ]
python
test
ralphje/imagemounter
imagemounter/parser.py
https://github.com/ralphje/imagemounter/blob/86213781c366cad65096447d91f522f0a3fb4b93/imagemounter/parser.py#L109-L119
def mount_disks(self): """Mounts all disks in the parser, i.e. calling :func:`Disk.mount` on all underlying disks. You probably want to use :func:`init` instead. :return: whether all mounts have succeeded :rtype: bool""" result = True for disk in self.disks: ...
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Mounts all disks in the parser, i.e. calling :func:`Disk.mount` on all underlying disks. You probably want to use :func:`init` instead. :return: whether all mounts have succeeded :rtype: bool
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python
train
LogicalDash/LiSE
allegedb/allegedb/cache.py
https://github.com/LogicalDash/LiSE/blob/fe6fd4f0a7c1780e065f4c9babb9bc443af6bb84/allegedb/allegedb/cache.py#L765-L780
def retrieve(self, *args): """Get a value previously .store(...)'d. Needs at least five arguments. The -1th is the tick within the turn you want, the -2th is that turn, the -3th is the branch, and the -4th is the key. All other arguments identify the entity that the key ...
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Get a value previously .store(...)'d. Needs at least five arguments. The -1th is the tick within the turn you want, the -2th is that turn, the -3th is the branch, and the -4th is the key. All other arguments identify the entity that the key is in.
[ "Get", "a", "value", "previously", ".", "store", "(", "...", ")", "d", "." ]
python
train
boakley/robotframework-hub
rfhub/kwdb.py
https://github.com/boakley/robotframework-hub/blob/f3dc7562fe6218a7b8d7aac7b9ef234e1a573f7c/rfhub/kwdb.py#L86-L111
def on_change(self, path, event_type): """Respond to changes in the file system This method will be given the path to a file that has changed on disk. We need to reload the keywords from that file """ # I can do all this work in a sql statement, but # for debuggi...
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Respond to changes in the file system This method will be given the path to a file that has changed on disk. We need to reload the keywords from that file
[ "Respond", "to", "changes", "in", "the", "file", "system" ]
python
train
xingjiepan/cylinder_fitting
cylinder_fitting/geometry.py
https://github.com/xingjiepan/cylinder_fitting/blob/f96d79732bc49cbc0cb4b39f008af7ce42aeb213/cylinder_fitting/geometry.py#L23-L29
def point_line_distance(p, l_p, l_v): '''Calculate the distance between a point and a line defined by a point and a direction vector. ''' l_v = normalize(l_v) u = p - l_p return np.linalg.norm(u - np.dot(u, l_v) * l_v)
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Calculate the distance between a point and a line defined by a point and a direction vector.
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python
train
cggh/scikit-allel
allel/stats/sf.py
https://github.com/cggh/scikit-allel/blob/3c979a57a100240ba959dd13f98839349530f215/allel/stats/sf.py#L638-L675
def plot_sfs_folded_scaled(*args, **kwargs): """Plot a folded scaled site frequency spectrum. Parameters ---------- s : array_like, int, shape (n_chromosomes/2,) Site frequency spectrum. yscale : string, optional Y axis scale. bins : int or array_like, int, optional Alle...
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Plot a folded scaled site frequency spectrum. Parameters ---------- s : array_like, int, shape (n_chromosomes/2,) Site frequency spectrum. yscale : string, optional Y axis scale. bins : int or array_like, int, optional Allele count bins. n : int, optional Number ...
[ "Plot", "a", "folded", "scaled", "site", "frequency", "spectrum", "." ]
python
train
fpoirotte/sphinxcontrib-varlinks
sphinxcontrib/varlinks.py
https://github.com/fpoirotte/sphinxcontrib-varlinks/blob/836899486e841fee4bac32a9d57da2786b2045c6/sphinxcontrib/varlinks.py#L92-L123
def apply(self): """Replace substitutions in hyperlinks with their contents""" # In this phase, we replace the substitutions in hyperlinks # with the contents of the sub-nodes introduced during phase 1. # We also remove those temporary nodes from the tree. subst_re = re.compile(s...
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Replace substitutions in hyperlinks with their contents
[ "Replace", "substitutions", "in", "hyperlinks", "with", "their", "contents" ]
python
train
kratsg/ironman
ironman/utilities.py
https://github.com/kratsg/ironman/blob/7d67b79970870e7e5520181d2afa3f423e46eb3a/ironman/utilities.py#L7-L10
def byteswap(data, word_size=4): """ Swap the byte-ordering in a packet with N=4 bytes per word """ return reduce(lambda x,y: x+''.join(reversed(y)), chunks(data, word_size), '')
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Swap the byte-ordering in a packet with N=4 bytes per word
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python
train
theduke/django-baseline
django_baseline/template.py
https://github.com/theduke/django-baseline/blob/7be8b956e53c70b35f34e1783a8fe8f716955afb/django_baseline/template.py#L5-L24
def render_template(tpl, context): ''' A shortcut function to render a partial template with context and return the output. ''' templates = [tpl] if type(tpl) != list else tpl tpl_instance = None for tpl in templates: try: tpl_instance = template.loader.get_t...
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A shortcut function to render a partial template with context and return the output.
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python
test
secdev/scapy
scapy/contrib/http2.py
https://github.com/secdev/scapy/blob/3ffe757c184017dd46464593a8f80f85abc1e79a/scapy/contrib/http2.py#L1111-L1137
def huffman_conv2str(cls, bit_str, bit_len): # type: (int, int) -> str """ huffman_conv2str converts a bitstring of bit_len bitlength into a binary string. It DOES NOT compress/decompress the bitstring! @param int bit_str: the bitstring to convert. @param int bit_len: the bitlen...
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huffman_conv2str converts a bitstring of bit_len bitlength into a binary string. It DOES NOT compress/decompress the bitstring! @param int bit_str: the bitstring to convert. @param int bit_len: the bitlength of bit_str. @return str: the converted bitstring as a bytestring. @rais...
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python
train
inspirehep/inspire-utils
inspire_utils/urls.py
https://github.com/inspirehep/inspire-utils/blob/b0b5983c58700735dfde75e4c8bd32834f2473d4/inspire_utils/urls.py#L31-L51
def ensure_scheme(url, default_scheme='http'): """Adds a scheme to a url if not present. Args: url (string): a url, assumed to start with netloc default_scheme (string): a scheme to be added Returns: string: URL with a scheme """ parsed = urlsplit(url, scheme=default_scheme...
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Adds a scheme to a url if not present. Args: url (string): a url, assumed to start with netloc default_scheme (string): a scheme to be added Returns: string: URL with a scheme
[ "Adds", "a", "scheme", "to", "a", "url", "if", "not", "present", "." ]
python
train
klmitch/turnstile
turnstile/config.py
https://github.com/klmitch/turnstile/blob/8fe9a359b45e505d3192ab193ecf9be177ab1a17/turnstile/config.py#L228-L254
def to_bool(value, do_raise=True): """Convert a string to a boolean value. If the string consists of digits, the integer value of the string is coerced to a boolean value. Otherwise, any of the strings "t", "true", "on", "y", and "yes" are considered True and any of the strings...
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Convert a string to a boolean value. If the string consists of digits, the integer value of the string is coerced to a boolean value. Otherwise, any of the strings "t", "true", "on", "y", and "yes" are considered True and any of the strings "f", "false", "off", "n", and "no" are consid...
[ "Convert", "a", "string", "to", "a", "boolean", "value", "." ]
python
train
scopus-api/scopus
scopus/deprecated_/scopus_api.py
https://github.com/scopus-api/scopus/blob/27ce02dd3095bfdab9d3e8475543d7c17767d1ab/scopus/deprecated_/scopus_api.py#L164-L174
def references(self): """Return EIDs of references of an article. Note: Requires the FULL view of the article. """ refs = self.items.find('bibrecord/tail/bibliography', ns) if refs is not None: eids = [r.find("ref-info/refd-itemidlist/itemid", ns).text for r ...
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Return EIDs of references of an article. Note: Requires the FULL view of the article.
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python
train
openeemeter/eemeter
eemeter/caltrack/usage_per_day.py
https://github.com/openeemeter/eemeter/blob/e03b1cc5f4906e8f4f7fd16183bc037107d1dfa0/eemeter/caltrack/usage_per_day.py#L1303-L1344
def get_hdd_only_candidate_models( data, minimum_non_zero_hdd, minimum_total_hdd, beta_hdd_maximum_p_value, weights_col ): """ Parameters ---------- data : :any:`pandas.DataFrame` A DataFrame containing at least the column ``meter_value`` and 1 to n columns with names of the form ``h...
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Parameters ---------- data : :any:`pandas.DataFrame` A DataFrame containing at least the column ``meter_value`` and 1 to n columns with names of the form ``hdd_<balance_point>``. All columns with names of this form will be used to fit a candidate model. DataFrames of this form ca...
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python
train
pescadores/pescador
examples/mux/mux_files_example.py
https://github.com/pescadores/pescador/blob/786e2b5f882d13ea563769fbc7ad0a0a10c3553d/examples/mux/mux_files_example.py#L60-L71
def npz_generator(npz_path): """Generate data from an npz file.""" npz_data = np.load(npz_path) X = npz_data['X'] # Y is a binary maxtrix with shape=(n, k), each y will have shape=(k,) y = npz_data['Y'] n = X.shape[0] while True: i = np.random.randint(0, n) yield {'X': X[i]...
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Generate data from an npz file.
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python
train
tjcsl/ion
intranet/apps/users/templatetags/users.py
https://github.com/tjcsl/ion/blob/5d722b0725d572039bb0929fd5715a4070c82c72/intranet/apps/users/templatetags/users.py#L21-L26
def argument_request_user(obj, func_name): """Pass request.user as an argument to the given function call.""" func = getattr(obj, func_name) request = threadlocals.request() if request: return func(request.user)
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Pass request.user as an argument to the given function call.
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python
train
PierreRust/apigpio
apigpio/apigpio.py
https://github.com/PierreRust/apigpio/blob/2b969f40e06219b43a43498d8baf87f5935ceab2/apigpio/apigpio.py#L1033-L1054
def set_servo_pulsewidth(self, user_gpio, pulsewidth): """ Starts (500-2500) or stops (0) servo pulses on the GPIO. user_gpio:= 0-31. pulsewidth:= 0 (off), 500 (most anti-clockwise) - 2500 (most clockwise). The selected pulsewidth will continue to be transmi...
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Starts (500-2500) or stops (0) servo pulses on the GPIO. user_gpio:= 0-31. pulsewidth:= 0 (off), 500 (most anti-clockwise) - 2500 (most clockwise). The selected pulsewidth will continue to be transmitted until changed by a subsequent call to set_servo_pulsewidth. ...
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python
train
Brightmd/TxPx
txpx/process.py
https://github.com/Brightmd/TxPx/blob/403c18b3006fc68842ec05b259e8611fe80763aa/txpx/process.py#L86-L96
def processEnded(self, reason): """ Connected process shut down """ log_debug("{name} process exited", name=self.name) if self.deferred: if reason.type == ProcessDone: self.deferred.callback(reason.value.exitCode) elif reason.type == Proces...
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Connected process shut down
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python
train
theislab/scanpy
scanpy/preprocessing/_simple.py
https://github.com/theislab/scanpy/blob/9e4e5ee02e04cf618872d9b098e24f0542e8b227/scanpy/preprocessing/_simple.py#L826-L878
def scale(data, zero_center=True, max_value=None, copy=False) -> Optional[AnnData]: """Scale data to unit variance and zero mean. .. note:: Variables (genes) that do not display any variation (are constant across all observations) are retained and set to 0 during this operation. In the ...
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Scale data to unit variance and zero mean. .. note:: Variables (genes) that do not display any variation (are constant across all observations) are retained and set to 0 during this operation. In the future, they might be set to NaNs. Parameters ---------- data : :class:`~annda...
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python
train
androguard/androguard
androguard/core/bytecodes/apk.py
https://github.com/androguard/androguard/blob/984c0d981be2950cf0451e484f7b0d4d53bc4911/androguard/core/bytecodes/apk.py#L1011-L1036
def is_tag_matched(self, tag, **attribute_filter): r""" Return true if the attributes matches in attribute filter. An attribute filter is a dictionary containing: {attribute_name: value}. This function will return True if and only if all attributes have the same value. This func...
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r""" Return true if the attributes matches in attribute filter. An attribute filter is a dictionary containing: {attribute_name: value}. This function will return True if and only if all attributes have the same value. This function allows to set the dictionary via kwargs, thus you can ...
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python
train
awslabs/sockeye
sockeye/utils.py
https://github.com/awslabs/sockeye/blob/5d64a1ee1ef3cbba17c6d1d94bc061020c43f6ab/sockeye/utils.py#L503-L533
def get_gpu_memory_usage(ctx: List[mx.context.Context]) -> Dict[int, Tuple[int, int]]: """ Returns used and total memory for GPUs identified by the given context list. :param ctx: List of MXNet context devices. :return: Dictionary of device id mapping to a tuple of (memory used, memory total). """ ...
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Returns used and total memory for GPUs identified by the given context list. :param ctx: List of MXNet context devices. :return: Dictionary of device id mapping to a tuple of (memory used, memory total).
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python
train
taskcluster/taskcluster-client.py
taskcluster/aio/queue.py
https://github.com/taskcluster/taskcluster-client.py/blob/bcc95217f8bf80bed2ae5885a19fa0035da7ebc9/taskcluster/aio/queue.py#L767-L785
async def declareWorkerType(self, *args, **kwargs): """ Update a worker-type Declare a workerType, supplying some details about it. `declareWorkerType` allows updating one or more properties of a worker-type as long as the required scopes are possessed. For example, a request t...
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Update a worker-type Declare a workerType, supplying some details about it. `declareWorkerType` allows updating one or more properties of a worker-type as long as the required scopes are possessed. For example, a request to update the `gecko-b-1-w2008` worker-type within the `aws-provisioner-v...
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python
train
woolfson-group/isambard
isambard/ampal/pdb_parser.py
https://github.com/woolfson-group/isambard/blob/ebc33b48a28ad217e18f93b910dfba46e6e71e07/isambard/ampal/pdb_parser.py#L337-L374
def proc_monomer(self, monomer_info, parent, mon_cls=False): """Processes a records into a `Monomer`. Parameters ---------- monomer_info : (set, OrderedDict) Labels and data for a monomer. parent : ampal.Polymer `Polymer` used to assign `ampal_parent` on ...
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Processes a records into a `Monomer`. Parameters ---------- monomer_info : (set, OrderedDict) Labels and data for a monomer. parent : ampal.Polymer `Polymer` used to assign `ampal_parent` on created `Monomer`. mon_cls : `Monomer class or subcl...
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python
train
COLORFULBOARD/revision
revision/client.py
https://github.com/COLORFULBOARD/revision/blob/2f22e72cce5b60032a80c002ac45c2ecef0ed987/revision/client.py#L235-L243
def save(self, revision): """ :param revision: :type revision: :class:`revision.data.Revision` """ if not isinstance(revision, Revision): raise InvalidArgType() self.state.update(revision)
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:param revision: :type revision: :class:`revision.data.Revision`
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python
train
ewels/MultiQC
multiqc/utils/report.py
https://github.com/ewels/MultiQC/blob/2037d6322b2554146a74efbf869156ad20d4c4ec/multiqc/utils/report.py#L48-L187
def get_filelist(run_module_names): """ Go through all supplied search directories and assembly a master list of files to search. Then fire search functions for each file. """ # Prep search patterns spatterns = [{},{},{},{},{},{},{}] epatterns = [{}, {}] ignored_patterns = [] for key...
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Go through all supplied search directories and assembly a master list of files to search. Then fire search functions for each file.
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python
train
rh-marketingops/dwm
dwm/wrappers.py
https://github.com/rh-marketingops/dwm/blob/66c7d18db857afbe5d574478ceaaad6159ae7469/dwm/wrappers.py#L6-L37
def lookupAll(data, configFields, lookupType, db, histObj={}): """ Return a record after having cleaning rules of specified type applied to all fields in the config :param dict data: single record (dictionary) to which cleaning rules should be applied :param dict configFields: "fields" object from DWM ...
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Return a record after having cleaning rules of specified type applied to all fields in the config :param dict data: single record (dictionary) to which cleaning rules should be applied :param dict configFields: "fields" object from DWM config (see DataDictionary) :param string lookupType: Type of lookup to...
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python
train
walkr/oi
setup.py
https://github.com/walkr/oi/blob/d9d8491d0bc920e493d8f716d6078762b8b2c6d3/setup.py#L17-L31
def read_long_description(readme_file): """ Read package long description from README file """ try: import pypandoc except (ImportError, OSError) as e: print('No pypandoc or pandoc: %s' % (e,)) if is_py3: fh = open(readme_file, encoding='utf-8') else: ...
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Read package long description from README file
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python
train
raymondEhlers/pachyderm
pachyderm/histogram.py
https://github.com/raymondEhlers/pachyderm/blob/aaa1d8374fd871246290ce76f1796f2f7582b01d/pachyderm/histogram.py#L602-L620
def get_bin_edges_from_axis(axis) -> np.ndarray: """ Get bin edges from a ROOT hist axis. Note: Doesn't include over- or underflow bins! Args: axis (ROOT.TAxis): Axis from which the bin edges should be extracted. Returns: Array containing the bin edges. """ # Don't incl...
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Get bin edges from a ROOT hist axis. Note: Doesn't include over- or underflow bins! Args: axis (ROOT.TAxis): Axis from which the bin edges should be extracted. Returns: Array containing the bin edges.
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python
train
DataBiosphere/dsub
dsub/lib/param_util.py
https://github.com/DataBiosphere/dsub/blob/443ce31daa6023dc2fd65ef2051796e19d18d5a7/dsub/lib/param_util.py#L836-L877
def age_to_create_time(age, from_time=None): """Compute the create time (UTC) for the list filter. If the age is an integer value it is treated as a UTC date. Otherwise the value must be of the form "<integer><unit>" where supported units are s, m, h, d, w (seconds, minutes, hours, days, weeks). Args: a...
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Compute the create time (UTC) for the list filter. If the age is an integer value it is treated as a UTC date. Otherwise the value must be of the form "<integer><unit>" where supported units are s, m, h, d, w (seconds, minutes, hours, days, weeks). Args: age: A "<integer><unit>" string or integer value. ...
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python
valid
aptivate/django-sortable-listview
sortable_listview/views.py
https://github.com/aptivate/django-sortable-listview/blob/9d5fa5847f0c3e80893780c6540e5098635ace9f/sortable_listview/views.py#L94-L106
def get_querystring(self): """ Clean existing query string (GET parameters) by removing arguments that we don't want to preserve (sort parameter, 'page') """ to_remove = self.get_querystring_parameter_to_remove() query_string = urlparse(self.request.get_full_path()).query...
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Clean existing query string (GET parameters) by removing arguments that we don't want to preserve (sort parameter, 'page')
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python
train
ethereum/py-evm
eth/vm/stack.py
https://github.com/ethereum/py-evm/blob/58346848f076116381d3274bbcea96b9e2cfcbdf/eth/vm/stack.py#L99-L107
def dup(self, position: int) -> None: """ Perform a DUP operation on the stack. """ idx = -1 * position try: self.push(self.values[idx]) except IndexError: raise InsufficientStack("Insufficient stack items for DUP{0}".format(position))
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Perform a DUP operation on the stack.
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python
train
googleapis/google-cloud-python
firestore/google/cloud/firestore_v1beta1/collection.py
https://github.com/googleapis/google-cloud-python/blob/85e80125a59cb10f8cb105f25ecc099e4b940b50/firestore/google/cloud/firestore_v1beta1/collection.py#L325-L343
def start_after(self, document_fields): """Start query after a cursor with this collection as parent. See :meth:`~.firestore_v1beta1.query.Query.start_after` for more information on this method. Args: document_fields (Union[~.firestore_v1beta1.\ docu...
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Start query after a cursor with this collection as parent. See :meth:`~.firestore_v1beta1.query.Query.start_after` for more information on this method. Args: document_fields (Union[~.firestore_v1beta1.\ document.DocumentSnapshot, dict, list, tuple]): a docum...
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python
train
DataBiosphere/toil
src/toil/worker.py
https://github.com/DataBiosphere/toil/blob/a8252277ff814e7bee0971139c2344f88e44b644/src/toil/worker.py#L46-L100
def nextChainableJobGraph(jobGraph, jobStore): """Returns the next chainable jobGraph after this jobGraph if one exists, or None if the chain must terminate. """ #If no more jobs to run or services not finished, quit if len(jobGraph.stack) == 0 or len(jobGraph.services) > 0 or jobGraph.checkpoint !=...
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Returns the next chainable jobGraph after this jobGraph if one exists, or None if the chain must terminate.
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python
train
cloud9ers/gurumate
environment/lib/python2.7/site-packages/nose/plugins/logcapture.py
https://github.com/cloud9ers/gurumate/blob/075dc74d1ee62a8c6b7a8bf2b271364f01629d1e/environment/lib/python2.7/site-packages/nose/plugins/logcapture.py#L225-L233
def formatError(self, test, err): """Add captured log messages to error output. """ # logic flow copied from Capture.formatError test.capturedLogging = records = self.formatLogRecords() if not records: return err ec, ev, tb = err return (ec, self.addCa...
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Add captured log messages to error output.
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python
test
materialsproject/pymatgen
pymatgen/__init__.py
https://github.com/materialsproject/pymatgen/blob/4ca558cf72f8d5f8a1f21dfdfc0181a971c186da/pymatgen/__init__.py#L82-L104
def loadfn(fname): """ Convenience method to perform quick loading of data from a filename. The type of object returned depends the file type. Args: fname (string): A filename. Returns: Note that fname is matched using unix-style, i.e., fnmatch. (Structure) if *POSCAR*/*CON...
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Convenience method to perform quick loading of data from a filename. The type of object returned depends the file type. Args: fname (string): A filename. Returns: Note that fname is matched using unix-style, i.e., fnmatch. (Structure) if *POSCAR*/*CONTCAR*/*.cif (Vasprun) *...
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python
train
fprimex/zdesk
zdesk/zdesk_api.py
https://github.com/fprimex/zdesk/blob/851611c13b4d530e9df31390b3ec709baf0a0188/zdesk/zdesk_api.py#L3382-L3386
def ticket_comment_attachment_redact(self, ticket_id, comment_id, attachment_id, data, **kwargs): "https://developer.zendesk.com/rest_api/docs/core/attachments#redact-comment-attachment" api_path = "/api/v2/tickets/{ticket_id}/comments/{comment_id}/attachments/{attachment_id}/redact.json" api_pa...
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https://developer.zendesk.com/rest_api/docs/core/attachments#redact-comment-attachment
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python
train
etcher-be/elib_miz
elib_miz/mission.py
https://github.com/etcher-be/elib_miz/blob/f28db58fadb2cd9341e0ae4d65101c0cc7d8f3d7/elib_miz/mission.py#L1773-L1777
def radio_presets(self) -> typing.Iterator['FlyingUnit.RadioPresets']: """ Returns: generator over unit radio presets """ raise TypeError('unit #{}: {}'.format(self.unit_id, self.unit_name))
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Returns: generator over unit radio presets
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python
train
wummel/dosage
dosagelib/output.py
https://github.com/wummel/dosage/blob/a0109c3a46219f280e6e5e77183674e40da0f304/dosagelib/output.py#L69-L88
def write(self, s, level=0, color=None): """Write message with indentation, context and optional timestamp.""" if level > self.level: return if self.timestamps: timestamp = time.strftime(u'%H:%M:%S ') else: timestamp = u'' with lock: ...
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Write message with indentation, context and optional timestamp.
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python
train
watson-developer-cloud/python-sdk
ibm_watson/assistant_v2.py
https://github.com/watson-developer-cloud/python-sdk/blob/4c2c9df4466fcde88975da9ecd834e6ba95eb353/ibm_watson/assistant_v2.py#L1009-L1014
def _to_dict(self): """Return a json dictionary representing this model.""" _dict = {} if hasattr(self, 'system') and self.system is not None: _dict['system'] = self.system._to_dict() return _dict
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python
train
trivago/Protector
protector/parser/query_parser.py
https://github.com/trivago/Protector/blob/7ebe7bde965e27737b961a0cb5740724d174fdc7/protector/parser/query_parser.py#L139-L160
def create_select_query(self, tokens): """ Parse tokens of select query :param tokens: A list of InfluxDB query tokens """ if not tokens[Keyword.SELECT]: return None if not tokens[Keyword.FROM]: return None return SelectQuery( ...
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Parse tokens of select query :param tokens: A list of InfluxDB query tokens
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python
valid
xhtml2pdf/xhtml2pdf
xhtml2pdf/reportlab_paragraph.py
https://github.com/xhtml2pdf/xhtml2pdf/blob/230357a392f48816532d3c2fa082a680b80ece48/xhtml2pdf/reportlab_paragraph.py#L1461-L1655
def drawPara(self, debug=0): """Draws a paragraph according to the given style. Returns the final y position at the bottom. Not safe for paragraphs without spaces e.g. Japanese; wrapping algorithm will go infinite.""" if self.debug: print (id(self), "drawPara", self....
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Draws a paragraph according to the given style. Returns the final y position at the bottom. Not safe for paragraphs without spaces e.g. Japanese; wrapping algorithm will go infinite.
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python
train
apple/turicreate
src/external/xgboost/python-package/xgboost/libpath.py
https://github.com/apple/turicreate/blob/74514c3f99e25b46f22c6e02977fe3da69221c2e/src/external/xgboost/python-package/xgboost/libpath.py#L13-L45
def find_lib_path(): """Load find the path to xgboost dynamic library files. Returns ------- lib_path: list(string) List of all found library path to xgboost """ curr_path = os.path.dirname(os.path.abspath(os.path.expanduser(__file__))) # make pythonpack hack: copy this directory one...
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Load find the path to xgboost dynamic library files. Returns ------- lib_path: list(string) List of all found library path to xgboost
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python
train
theno/fabsetup
fabsetup/fabfile/setup/service/__init__.py
https://github.com/theno/fabsetup/blob/ced728abff93551ba5677e63bc1bdc0ef5ca5777/fabsetup/fabfile/setup/service/__init__.py#L191-L233
def vnc_raspi_osmc(): '''Install and configure dispmanx_vnc server on osmc (raspberry pi). More Infos: * https://github.com/patrikolausson/dispmanx_vnc * https://discourse.osmc.tv/t/howto-install-a-vnc-server-on-the-raspberry-pi/1517 * tightvnc: * http://raspberry.tips/raspberrypi-einstei...
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Install and configure dispmanx_vnc server on osmc (raspberry pi). More Infos: * https://github.com/patrikolausson/dispmanx_vnc * https://discourse.osmc.tv/t/howto-install-a-vnc-server-on-the-raspberry-pi/1517 * tightvnc: * http://raspberry.tips/raspberrypi-einsteiger/raspberry-pi-einsteiger-g...
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python
train
roamanalytics/mittens
mittens/np_mittens.py
https://github.com/roamanalytics/mittens/blob/dbf0c3f8d18651475cf7e21ab1ceb824c5f89150/mittens/np_mittens.py#L176-L200
def get_step(self, grad): """Computes the 'step' to take for the next gradient descent update. Returns the step rather than performing the update so that parameters can be updated in place rather than overwritten. Examples -------- >>> gradient = # ... >>> optim...
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Computes the 'step' to take for the next gradient descent update. Returns the step rather than performing the update so that parameters can be updated in place rather than overwritten. Examples -------- >>> gradient = # ... >>> optimizer = AdaGradOptimizer(0.01) ...
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python
train