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pip-services3-python/pip-services3-components-python | pip_services3_components/log/CompositeLogger.py | CompositeLogger.set_references | def set_references(self, references):
"""
Sets references to dependent components.
:param references: references to locate the component dependencies.
"""
super(CompositeLogger, self).set_references(references)
# descriptor = Descriptor(None, "logger", None, None, None)
... | python | def set_references(self, references):
"""
Sets references to dependent components.
:param references: references to locate the component dependencies.
"""
super(CompositeLogger, self).set_references(references)
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pip-services3-python/pip-services3-components-python | pip_services3_components/log/CompositeLogger.py | CompositeLogger._write | def _write(self, level, correlation_id, error, message):
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Writes a log message to the logger destination.
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Writes a log message to the logger destination.
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etcher-be/emiz | emiz/avwx/remarks.py | _tdec | def _tdec(code: str, unit: str = 'C') -> str:
"""
Translates a 4-digit decimal temperature representation
Ex: 1045 -> -4.5°C 0237 -> 23.7°C
"""
ret = f"{'-' if code[0] == '1' else ''}{int(code[1:3])}.{code[3]}"
if unit:
ret += f'°{unit}'
return ret | python | def _tdec(code: str, unit: str = 'C') -> str:
"""
Translates a 4-digit decimal temperature representation
Ex: 1045 -> -4.5°C 0237 -> 23.7°C
"""
ret = f"{'-' if code[0] == '1' else ''}{int(code[1:3])}.{code[3]}"
if unit:
ret += f'°{unit}'
return ret | [
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etcher-be/emiz | emiz/avwx/remarks.py | pressure_tendency | def pressure_tendency(code: str, unit: str = 'mb') -> str:
"""
Translates a 5-digit pressure outlook code
Ex: 50123 -> 12.3 mb: Increasing, then decreasing
"""
width, precision = int(code[2:4]), code[4]
return ('3-hour pressure difference: +/- '
f'{width}.{precision} {unit} - {PRESS... | python | def pressure_tendency(code: str, unit: str = 'mb') -> str:
"""
Translates a 5-digit pressure outlook code
Ex: 50123 -> 12.3 mb: Increasing, then decreasing
"""
width, precision = int(code[2:4]), code[4]
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etcher-be/emiz | emiz/avwx/remarks.py | parse | def parse(rmk: str) -> RemarksData:
"""
Finds temperature and dewpoint decimal values from the remarks
"""
rmkdata = {}
for item in rmk.split(' '):
if len(item) in [5, 9] and item[0] == 'T' and item[1:].isdigit():
rmkdata['temperature_decimal'] = core.make_number(_tdec(item[1:5],... | python | def parse(rmk: str) -> RemarksData:
"""
Finds temperature and dewpoint decimal values from the remarks
"""
rmkdata = {}
for item in rmk.split(' '):
if len(item) in [5, 9] and item[0] == 'T' and item[1:].isdigit():
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etcher-be/emiz | emiz/avwx/remarks.py | translate | def translate(remarks: str) -> typing.Dict[str, str]: # noqa
"""
Translates elements in the remarks string
"""
ret = {}
# Add and replace static multi-word elements
for key in REMARKS_GROUPS:
if key in remarks:
ret[key.strip()] = REMARKS_GROUPS[key]
remarks.repla... | python | def translate(remarks: str) -> typing.Dict[str, str]: # noqa
"""
Translates elements in the remarks string
"""
ret = {}
# Add and replace static multi-word elements
for key in REMARKS_GROUPS:
if key in remarks:
ret[key.strip()] = REMARKS_GROUPS[key]
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sahilchinoy/django-irs-filings | irs/management/commands/loadIRS.py | RowParser.clean_cell | def clean_cell(self, cell, cell_type):
"""
Uses the type of field (from the mapping) to
determine how to clean and format the cell.
"""
try:
# Get rid of non-ASCII characters
cell = cell.encode('ascii', 'ignore').decode()
if cell_type == 'D':
... | python | def clean_cell(self, cell, cell_type):
"""
Uses the type of field (from the mapping) to
determine how to clean and format the cell.
"""
try:
# Get rid of non-ASCII characters
cell = cell.encode('ascii', 'ignore').decode()
if cell_type == 'D':
... | [
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sahilchinoy/django-irs-filings | irs/management/commands/loadIRS.py | RowParser.parse_row | def parse_row(self):
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fields = self.mapping
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"""
Parses a row, cell-by-cell, returning a dict of field names
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"""
fields = self.mapping
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sahilchinoy/django-irs-filings | irs/management/commands/loadIRS.py | Command.build_mappings | def build_mappings(self):
"""
Uses CSV files of field names and positions for
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"""
self.mappings = {}
for record_type in ('sa', 'sb', 'F8872'):
path = os.pa... | python | def build_mappings(self):
"""
Uses CSV files of field names and positions for
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"""
self.mappings = {}
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jic-dtool/dtool-info | dtool_info/dataset.py | diff | def diff(full, dataset_uri, reference_dataset_uri):
"""Report the difference between two datasets.
1. Checks that the identifiers are identicial
2. Checks that the sizes are identical
3. Checks that the hashes are identical, if the '--full' option is used
If a differences is detected in step 1, st... | python | def diff(full, dataset_uri, reference_dataset_uri):
"""Report the difference between two datasets.
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3. Checks that the hashes are identical, if the '--full' option is used
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jic-dtool/dtool-info | dtool_info/dataset.py | ls | def ls(quiet, verbose, uri):
"""List datasets / items in a dataset.
If the URI is a dataset the items in the dataset will be listed.
It is not possible to list the items in a proto dataset.
If the URI is a location containing datasets the datasets will be listed.
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"""List datasets / items in a dataset.
If the URI is a dataset the items in the dataset will be listed.
It is not possible to list the items in a proto dataset.
If the URI is a location containing datasets the datasets will be listed.
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jic-dtool/dtool-info | dtool_info/dataset.py | identifiers | def identifiers(dataset_uri):
"""List the item identifiers in the dataset."""
dataset = dtoolcore.DataSet.from_uri(dataset_uri)
for i in dataset.identifiers:
click.secho(i) | python | def identifiers(dataset_uri):
"""List the item identifiers in the dataset."""
dataset = dtoolcore.DataSet.from_uri(dataset_uri)
for i in dataset.identifiers:
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jic-dtool/dtool-info | dtool_info/dataset.py | summary | def summary(dataset_uri, format):
"""Report summary information about a dataset."""
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creator_username = dataset._admin_metadata["creator_username"]
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"""Report summary information about a dataset."""
dataset = dtoolcore.DataSet.from_uri(dataset_uri)
creator_username = dataset._admin_metadata["creator_username"]
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jic-dtool/dtool-info | dtool_info/dataset.py | properties | def properties(dataset_uri, item_identifier):
"""Report item properties."""
dataset = dtoolcore.DataSet.from_uri(dataset_uri)
try:
props = dataset.item_properties(item_identifier)
except KeyError:
click.secho(
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... | python | def properties(dataset_uri, item_identifier):
"""Report item properties."""
dataset = dtoolcore.DataSet.from_uri(dataset_uri)
try:
props = dataset.item_properties(item_identifier)
except KeyError:
click.secho(
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jic-dtool/dtool-info | dtool_info/dataset.py | fetch | def fetch(dataset_uri, item_identifier):
"""Return abspath to file with item content.
Fetches the file from remote storage if required.
"""
dataset = dtoolcore.DataSet.from_uri(dataset_uri)
click.secho(dataset.item_content_abspath(item_identifier)) | python | def fetch(dataset_uri, item_identifier):
"""Return abspath to file with item content.
Fetches the file from remote storage if required.
"""
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jic-dtool/dtool-info | dtool_info/dataset.py | overlay | def overlay(overlay_name, dataset_uri, item_identifier):
"""Return abspath to file with item content.
Fetches the file from remote storage if required.
"""
dataset = dtoolcore.DataSet.from_uri(dataset_uri)
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click.secho(
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"""Return abspath to file with item content.
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"""
dataset = dtoolcore.DataSet.from_uri(dataset_uri)
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jic-dtool/dtool-info | dtool_info/dataset.py | relpath | def relpath(dataset_uri, item_identifier):
"""Return relpath associated with the item.
"""
dataset = dtoolcore.DataSet.from_uri(dataset_uri)
try:
props = dataset.item_properties(item_identifier)
except KeyError:
click.secho(
"No such item in dataset: {}".format(item_ident... | python | def relpath(dataset_uri, item_identifier):
"""Return relpath associated with the item.
"""
dataset = dtoolcore.DataSet.from_uri(dataset_uri)
try:
props = dataset.item_properties(item_identifier)
except KeyError:
click.secho(
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jic-dtool/dtool-info | dtool_info/dataset.py | verify | def verify(full, dataset_uri):
"""Verify the integrity of a dataset.
"""
dataset = dtoolcore.DataSet.from_uri(dataset_uri)
all_okay = True
generated_manifest = dataset.generate_manifest()
generated_identifiers = set(generated_manifest["items"].keys())
manifest_identifiers = set(dataset.iden... | python | def verify(full, dataset_uri):
"""Verify the integrity of a dataset.
"""
dataset = dtoolcore.DataSet.from_uri(dataset_uri)
all_okay = True
generated_manifest = dataset.generate_manifest()
generated_identifiers = set(generated_manifest["items"].keys())
manifest_identifiers = set(dataset.iden... | [
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jic-dtool/dtool-info | dtool_info/dataset.py | uuid | def uuid(dataset_uri):
"""Return the UUID of the dataset."""
dataset = dtoolcore.DataSet.from_uri(dataset_uri)
click.secho(dataset.uuid) | python | def uuid(dataset_uri):
"""Return the UUID of the dataset."""
dataset = dtoolcore.DataSet.from_uri(dataset_uri)
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phoopy/phoopy-yaml | phoopy/yaml/yaml_parser.py | YamlParser.merge | def merge(self, destination, source):
"""
run me with nosetests --with-doctest file.py
>>> a = { 'first' : { 'all_rows' : { 'pass' : 'dog', 'number' : '1' } } }
>>> b = { 'first' : { 'all_rows' : { 'fail' : 'cat', 'number' : '5' } } }
>>> merge(a, b) == { 'first' : { 'all_rows' ... | python | def merge(self, destination, source):
"""
run me with nosetests --with-doctest file.py
>>> a = { 'first' : { 'all_rows' : { 'pass' : 'dog', 'number' : '1' } } }
>>> b = { 'first' : { 'all_rows' : { 'fail' : 'cat', 'number' : '5' } } }
>>> merge(a, b) == { 'first' : { 'all_rows' ... | [
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carlosp420/dataset-creator | dataset_creator/base_dataset.py | DatasetBlock.split_data | def split_data(self):
"""Splits the list of SeqRecordExpanded objects into lists, which are
kept into a bigger list.
If the file_format is Nexus, then it is only partitioned by gene. If it
is FASTA, then it needs partitioning by codon positions if required.
Example:
... | python | def split_data(self):
"""Splits the list of SeqRecordExpanded objects into lists, which are
kept into a bigger list.
If the file_format is Nexus, then it is only partitioned by gene. If it
is FASTA, then it needs partitioning by codon positions if required.
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carlosp420/dataset-creator | dataset_creator/base_dataset.py | DatasetBlock.convert_to_string | def convert_to_string(self, block):
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"""Makes gene_block as str from list of SeqRecordExpanded objects of a gene_code.
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carlosp420/dataset-creator | dataset_creator/base_dataset.py | DatasetBlock.convert_block_dicts_to_string | def convert_block_dicts_to_string(self, block_1st2nd, block_1st, block_2nd, block_3rd):
"""Takes into account whether we need to output all codon positions."""
out = ""
# We need 1st and 2nd positions
if self.codon_positions in ['ALL', '1st-2nd']:
for gene_code, seqs in block... | python | def convert_block_dicts_to_string(self, block_1st2nd, block_1st, block_2nd, block_3rd):
"""Takes into account whether we need to output all codon positions."""
out = ""
# We need 1st and 2nd positions
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carlosp420/dataset-creator | dataset_creator/base_dataset.py | DatasetFooter.make_charsets | def make_charsets(self):
"""
Override this function for Phylip dataset as the content is different and
goes into a separate file.
"""
count_start = 1
out = ''
for gene_code, lengths in self.data.gene_codes_and_lengths.items():
count_end = lengths[0] + ... | python | def make_charsets(self):
"""
Override this function for Phylip dataset as the content is different and
goes into a separate file.
"""
count_start = 1
out = ''
for gene_code, lengths in self.data.gene_codes_and_lengths.items():
count_end = lengths[0] + ... | [
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carlosp420/dataset-creator | dataset_creator/base_dataset.py | DatasetFooter.make_slash_number | def make_slash_number(self):
"""
Charset lines have \2 or \3 depending on type of partitioning and codon
positions requested for our dataset.
:return:
"""
if self.partitioning == 'by codon position' and self.codon_positions == '1st-2nd':
return '\\2'
... | python | def make_slash_number(self):
"""
Charset lines have \2 or \3 depending on type of partitioning and codon
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:return:
"""
if self.partitioning == 'by codon position' and self.codon_positions == '1st-2nd':
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carlosp420/dataset-creator | dataset_creator/base_dataset.py | DatasetFooter.add_suffixes_to_gene_codes | def add_suffixes_to_gene_codes(self):
"""Appends pos1, pos2, etc to the gene_code if needed."""
out = []
for gene_code in self.data.gene_codes:
for sufix in self.make_gene_code_suffixes():
out.append('{0}{1}'.format(gene_code, sufix))
return out | python | def add_suffixes_to_gene_codes(self):
"""Appends pos1, pos2, etc to the gene_code if needed."""
out = []
for gene_code in self.data.gene_codes:
for sufix in self.make_gene_code_suffixes():
out.append('{0}{1}'.format(gene_code, sufix))
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carlosp420/dataset-creator | dataset_creator/base_dataset.py | DatasetFooter.get_outgroup | def get_outgroup(self):
"""Generates the outgroup line from the voucher code specified by the
user.
"""
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outgroup_taxonomy = ''
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out... | python | def get_outgroup(self):
"""Generates the outgroup line from the voucher code specified by the
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etcher-be/emiz | emiz/mission_time.py | MissionTime.apply_to_miz | def apply_to_miz(self, miz):
"""
Applies this datetime to a Miz object (it will be mutated in place)
Args:
miz: MIZ object to mutate
Returns: True
"""
miz.mission.day = self.date.day
miz.mission.month = self.date.month
miz.mission.year = sel... | python | def apply_to_miz(self, miz):
"""
Applies this datetime to a Miz object (it will be mutated in place)
Args:
miz: MIZ object to mutate
Returns: True
"""
miz.mission.day = self.date.day
miz.mission.month = self.date.month
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etcher-be/emiz | emiz/mission_time.py | MissionTime.from_string | def from_string(input_str) -> 'MissionTime':
# noinspection SpellCheckingInspection
"""
Creates a MissionTime instance from a string
Format: YYYYMMDDHHMMSS
Args:
input_str: string to parse
Returns: MissionTime instance
"""
match = RE_INPUT_... | python | def from_string(input_str) -> 'MissionTime':
# noinspection SpellCheckingInspection
"""
Creates a MissionTime instance from a string
Format: YYYYMMDDHHMMSS
Args:
input_str: string to parse
Returns: MissionTime instance
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dossier/dossier.models | dossier/models/report.py | ReportGenerator.run | def run(self, output):
'''Generate the report to the given output.
:param output: writable file-like object or file path
'''
# Ensure folder exists.
if self.folder_id not in self.folders.folders(self.user):
print("E: folder not found: %s" % self.folder_name,
... | python | def run(self, output):
'''Generate the report to the given output.
:param output: writable file-like object or file path
'''
# Ensure folder exists.
if self.folder_id not in self.folders.folders(self.user):
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dossier/dossier.models | dossier/models/report.py | ReportGenerator._generate_report_all | def _generate_report_all(self):
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# Do all subfolders
for sid in self.folders.subfolders(self.folder_id, self.user):
count += 1
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'''Generate report for all subfolders contained by self.folder_id.'''
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count = 0
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dossier/dossier.models | dossier/models/report.py | ReportGenerator._generate_report_single | def _generate_report_single(self, sid):
'''Generate report for subfolder given by sid .
The main purpose of this method is to make sure the subfolder given by
sid does indeed exist. All real work is delegated to
_generate_for_subfolder.
:param sid: The subfolder id
Pr... | python | def _generate_report_single(self, sid):
'''Generate report for subfolder given by sid .
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dossier/dossier.models | dossier/models/report.py | ReportGenerator._generate_for_subfolder | def _generate_for_subfolder(self, sid):
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dossier/dossier.models | dossier/models/report.py | ItemImage.generate_to | def generate_to(self, worksheet, row):
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Generates a row report of the item represented by this instance and
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:param worksheet: Reference to a worksheet in which to insert row
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dossier/dossier.models | dossier/models/report.py | ItemText.generate_to | def generate_to(self, worksheet, row):
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Generates a row report of the item represented by this instance and
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:param worksheet: Reference to a worksheet in which to insert row
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bfontaine/p7magma | magma/courses.py | Course.desc | def desc(self):
"""
A textual description of this course
"""
if 'ects' in self:
fmt = '%s (%s, S%d) [%s, %.2f ECTS]'
fields = ('title', 'code', 'semester', 'status', 'ects')
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fmt = '%s'
fields = ('title',)
s = fmt % tu... | python | def desc(self):
"""
A textual description of this course
"""
if 'ects' in self:
fmt = '%s (%s, S%d) [%s, %.2f ECTS]'
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bfontaine/p7magma | magma/courses.py | CoursesList._populate | def _populate(self, soup):
"""
Populate the list, assuming ``soup`` is a ``BeautifulSoup`` object.
"""
tables = soup.select('table[rules=all]')
if not tables:
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# M1
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"""
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bfontaine/p7magma | magma/courses.py | CoursesList._populate_small_table | def _populate_small_table(self, trs):
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"""
Return a filtered version of this list following the given criteria,
which can be a string (take only courses where this attribute is
truthy) or a function which takes a course and return a boolean.
"""
if isinstance(criteria, str) or isins... | python | def filter(self, criteria):
"""
Return a filtered version of this list following the given criteria,
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matthewdeanmartin/jiggle_version | jiggle_version/module_finder.py | ModuleFinder.setup_py_source | def setup_py_source(self): # type: () -> Optional[str]
"""
Read setup.py to string
:return:
"""
if not self.setup_source:
self.setup_source = self._read_file("setup.py")
if not self.setup_source:
self.setup_source = self._read_file("setup") # rar... | python | def setup_py_source(self): # type: () -> Optional[str]
"""
Read setup.py to string
:return:
"""
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self.setup_source = self._read_file("setup.py")
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matthewdeanmartin/jiggle_version | jiggle_version/module_finder.py | ModuleFinder.extract_package_dir | def extract_package_dir(self): # type: () -> Optional[str]
"""
Get the package_dir dictionary from source
:return:
"""
# package_dir={'': 'lib'},
source = self.setup_py_source()
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# this happens when the setup.py file is missing
... | python | def extract_package_dir(self): # type: () -> Optional[str]
"""
Get the package_dir dictionary from source
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matthewdeanmartin/jiggle_version | jiggle_version/module_finder.py | ModuleFinder.via_find_packages | def via_find_packages(self): # type: () -> List[str]
"""
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:return:
"""
packages = [] # type: List[str]
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"""
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matthewdeanmartin/jiggle_version | jiggle_version/module_finder.py | ModuleFinder.find_top_level_modules_by_dunder_init | def find_top_level_modules_by_dunder_init(self): # type: () -> List[str]
"""
Find modules along side setup.py (or in current folder)
Recreates what find_packages does.
:return:
"""
# TODO: use package_dirs
packaged_dirs = ""
try:
# Right now ... | python | def find_top_level_modules_by_dunder_init(self): # type: () -> List[str]
"""
Find modules along side setup.py (or in current folder)
Recreates what find_packages does.
:return:
"""
# TODO: use package_dirs
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matthewdeanmartin/jiggle_version | jiggle_version/module_finder.py | ModuleFinder.find_single_file_project | def find_single_file_project(self): # type: () -> List[str]
"""
Take first non-setup.py python file. What a mess.
:return:
"""
# TODO: use package_dirs
packaged_dirs = ""
try:
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"""
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:return:
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lwcook/horsetail-matching | horsetailmatching/hm.py | _extalg | def _extalg(xarr, alpha=100, axis=None):
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goldhand/django-nupages | nupages/views.py | PageList.get_queryset | def get_queryset(self):
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'''
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goldhand/django-nupages | nupages/views.py | PageDetail.get_template_names | def get_template_names(self):
'''
Looks for a custom_template value and prepends it to template_names
if it exists otherwise 'nupages/page_detail.html' is used
'''
template_names = super(PageDetail, self).get_template_names()
if self.get_object().custom_template:
... | python | def get_template_names(self):
'''
Looks for a custom_template value and prepends it to template_names
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'''
template_names = super(PageDetail, self).get_template_names()
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etcher-be/emiz | emiz/weather/noaa/__init__.py | retrieve_taf | def retrieve_taf(station_icao) -> typing.Tuple[typing.Union[str, None], typing.Union[str, None]]:
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Retrieves a TAF string from an online database
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station_icao: ICAO of the station
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tuple of error, metar_str
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url = _BASE_TAF_URL.format(station=station_icao)
... | python | def retrieve_taf(station_icao) -> typing.Tuple[typing.Union[str, None], typing.Union[str, None]]:
"""
Retrieves a TAF string from an online database
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station_icao: ICAO of the station
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tuple of error, metar_str
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etcher-be/emiz | emiz/weather/noaa/__init__.py | retrieve_metar | def retrieve_metar(station_icao) -> typing.Tuple[typing.Optional[str], typing.Optional[str]]:
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Retrieves a METAR string from an online database
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station_icao: ICAO of the station
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tuple of error, metar_str
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url = _BASE_METAR_URL.format(station=station_icao)
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Retrieves a METAR string from an online database
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etcher-be/emiz | emiz/weather/custom_metar/custom_metar_pressure.py | CustomPressure.value | def value(self, units=None):
"""Return the pressure in the specified units."""
if units is None:
return self._value
if not units.upper() in CustomPressure.legal_units:
raise UnitsError("unrecognized pressure unit: '" + units + "'")
units = units.upper()
i... | python | def value(self, units=None):
"""Return the pressure in the specified units."""
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etcher-be/emiz | emiz/weather/custom_metar/custom_metar_pressure.py | CustomPressure.string | def string(self, units: typing.Optional[str] = None) -> str:
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radjkarl/fancyTools | fancytools/math/vector3d.py | vectorAngle | def vectorAngle(vec1,vec2):
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vector (x,y,z) or vector field of shape (3,x,y)
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assert vec2.ndim == 3
vec1 = vectorToField(vec1, vec2.shape[:2])
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vec2 = vectorToField(vec2, vec1.shape[1:])
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'''
vector (x,y,z) or vector field of shape (3,x,y)
'''
if vec1.ndim == 1:
assert vec2.ndim == 3
vec1 = vectorToField(vec1, vec2.shape[:2])
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toastdriven/alligator | alligator/utils.py | determine_name | def determine_name(func):
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from random import choice
determine_name(choice) # Returns 'choice'
:param func: The callable
:type func: function
:returns: Name string
"""
if hasattr(func, '__name__'):
re... | python | def determine_name(func):
"""
Given a function, returns the name of the function.
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from random import choice
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toastdriven/alligator | alligator/utils.py | import_module | def import_module(module_name):
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mod = import_module('random')
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nefarioustim/parker | parker/configloader.py | load_site_config | def load_site_config(name):
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carlosp420/dataset-creator | dataset_creator/phylip.py | PhylipDatasetFooter.make_charsets | def make_charsets(self):
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kstark/months | months/months.py | Month.from_date | def from_date(cls, date):
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mbodenhamer/syn | syn/tree/b/tree.py | Tree.rebuild | def rebuild(self, **kwargs):
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mbodenhamer/syn | syn/tree/b/tree.py | Tree._check_search_kwarg_types | def _check_search_kwarg_types(self, kwargs):
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lambdalisue/maidenhair | src/maidenhair/statistics/__init__.py | average | def average(x):
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A numpy array instance
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... | python | def average(x):
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lambdalisue/maidenhair | src/maidenhair/statistics/__init__.py | mean | def mean(x):
"""
Return a numpy array of column mean.
It does not affect if the array is one dimension
Parameters
----------
x : ndarray
A numpy array instance
Returns
-------
ndarray
A 1 x n numpy array instance of column mean
Examples
--------
>>> a =... | python | def mean(x):
"""
Return a numpy array of column mean.
It does not affect if the array is one dimension
Parameters
----------
x : ndarray
A numpy array instance
Returns
-------
ndarray
A 1 x n numpy array instance of column mean
Examples
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lambdalisue/maidenhair | src/maidenhair/statistics/__init__.py | median | def median(x):
"""
Return a numpy array of column median.
It does not affect if the array is one dimension
Parameters
----------
x : ndarray
A numpy array instance
Returns
-------
ndarray
A 1 x n numpy array instance of column median
Examples
--------
>... | python | def median(x):
"""
Return a numpy array of column median.
It does not affect if the array is one dimension
Parameters
----------
x : ndarray
A numpy array instance
Returns
-------
ndarray
A 1 x n numpy array instance of column median
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lambdalisue/maidenhair | src/maidenhair/statistics/__init__.py | variance | def variance(x):
"""
Return a numpy array of column variance
Parameters
----------
x : ndarray
A numpy array instance
Returns
-------
ndarray
A 1 x n numpy array instance of column variance
Examples
--------
>>> a = np.array([[1, 2, 3], [4, 5, 6], [7, 8, 9]... | python | def variance(x):
"""
Return a numpy array of column variance
Parameters
----------
x : ndarray
A numpy array instance
Returns
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ndarray
A 1 x n numpy array instance of column variance
Examples
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lambdalisue/maidenhair | src/maidenhair/statistics/__init__.py | standard_deviation | def standard_deviation(x):
"""
Return a numpy array of column standard deviation
Parameters
----------
x : ndarray
A numpy array instance
Returns
-------
ndarray
A 1 x n numpy array instance of column standard deviation
Examples
--------
>>> a = np.array([[... | python | def standard_deviation(x):
"""
Return a numpy array of column standard deviation
Parameters
----------
x : ndarray
A numpy array instance
Returns
-------
ndarray
A 1 x n numpy array instance of column standard deviation
Examples
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lambdalisue/maidenhair | src/maidenhair/statistics/__init__.py | confidential_interval | def confidential_interval(x, alpha=0.98):
"""
Return a numpy array of column confidential interval
Parameters
----------
x : ndarray
A numpy array instance
alpha : float
Alpha value of confidential interval
Returns
-------
ndarray
A 1 x n numpy array which i... | python | def confidential_interval(x, alpha=0.98):
"""
Return a numpy array of column confidential interval
Parameters
----------
x : ndarray
A numpy array instance
alpha : float
Alpha value of confidential interval
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lambdalisue/maidenhair | src/maidenhair/statistics/__init__.py | simple_moving_matrix | def simple_moving_matrix(x, n=10):
"""
Create simple moving matrix.
Parameters
----------
x : ndarray
A numpy array
n : integer
The number of sample points used to make average
Returns
-------
ndarray
A n x n numpy array which will be useful for calculating ... | python | def simple_moving_matrix(x, n=10):
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Create simple moving matrix.
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x : ndarray
A numpy array
n : integer
The number of sample points used to make average
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lambdalisue/maidenhair | src/maidenhair/statistics/__init__.py | simple_moving_average | def simple_moving_average(x, n=10):
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x : ndarray
A numpy array
n : integer
The number of sample points used to make average
Returns
-------
ndarray
A 1 x n numpy array instance
"""
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"""
Calculate simple moving average
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x : ndarray
A numpy array
n : integer
The number of sample points used to make average
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ndarray
A 1 x n numpy array instance
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rbarrois/volatildap | volatildap/server.py | find_available_port | def find_available_port():
"""Find an available port.
Simple trick: open a socket to localhost, see what port was allocated.
Could fail in highly concurrent setups, though.
"""
s = socket.socket()
s.bind(('localhost', 0))
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s.close()
return port | python | def find_available_port():
"""Find an available port.
Simple trick: open a socket to localhost, see what port was allocated.
Could fail in highly concurrent setups, though.
"""
s = socket.socket()
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rbarrois/volatildap | volatildap/server.py | ldif_encode | def ldif_encode(attr, value):
"""Encode a attribute: value pair for the LDIF format.
See RFC2849 for details.
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See RFC2849 for details.
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rbarrois/volatildap | volatildap/server.py | OpenLdapPaths._find_file | def _find_file(self, needle, candidates):
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for candidate in candidates:
fullpath = os.path.join(candidate, needle)
if os.path.isfile(fullpath):
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raise PathError("Unable to loca... | python | def _find_file(self, needle, candidates):
"""Find the first directory containing a given candidate file."""
for candidate in candidates:
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rbarrois/volatildap | volatildap/server.py | LdapServer._locate_schemas | def _locate_schemas(self, schemas, skip_missing_schemas):
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If skip_missing_schemas is True, ignore missing schemas;
otherwise, raise.
"""
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rbarrois/volatildap | volatildap/server.py | LdapServer._start | def _start(self):
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"""Start the server."""
assert self._tempdir is not None
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rbarrois/volatildap | volatildap/server.py | LdapServer._populate | def _populate(self):
"""Populate a *running* server with initial data."""
self.add(self._core_data)
if self.initial_data:
self.add(self.initial_data) | python | def _populate(self):
"""Populate a *running* server with initial data."""
self.add(self._core_data)
if self.initial_data:
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rbarrois/volatildap | volatildap/server.py | LdapServer._poll_slapd | def _poll_slapd(self, timeout=DEFAULT_STARTUP_DELAY):
"""Poll slapd port until available."""
begin = time.time()
time.sleep(0.5)
while time.time() < begin + timeout:
if self._process.poll() is not None:
raise RuntimeError("LDAP server has exited before starti... | python | def _poll_slapd(self, timeout=DEFAULT_STARTUP_DELAY):
"""Poll slapd port until available."""
begin = time.time()
time.sleep(0.5)
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if self._process.poll() is not None:
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carlosp420/dataset-creator | dataset_creator/genbank_fasta.py | GenBankFASTADatasetBlock.convert_to_string | def convert_to_string(self, block):
"""
Takes a list of SeqRecordExpanded objects corresponding to a gene_code
and produces the gene_block as string.
:param block:
:return: str.
"""
out = ""
for seq_record in block:
taxon_id = ">{0}_{1}_{2} [o... | python | def convert_to_string(self, block):
"""
Takes a list of SeqRecordExpanded objects corresponding to a gene_code
and produces the gene_block as string.
:param block:
:return: str.
"""
out = ""
for seq_record in block:
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collectiveacuity/labPack | labpack/databases/couchbase.py | syncGatewayClient.create_view | def create_view(self, query_criteria=None, uid='_all_users'):
'''
a method to add a view to a design document of a uid
:param query_criteria: dictionary with valid jsonmodel query criteria
:param uid: [optional] string with uid of design document to update
... | python | def create_view(self, query_criteria=None, uid='_all_users'):
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collectiveacuity/labPack | labpack/databases/couchbase.py | syncGatewayClient.delete_view | def delete_view(self, query_criteria=None, uid='_all_users'):
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:param query_criteria: [optional] dictionary with valid jsonmodel query criteria
:param uid: [optional] string with uid of design document to up... | python | def delete_view(self, query_criteria=None, uid='_all_users'):
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collectiveacuity/labPack | labpack/databases/couchbase.py | syncGatewayClient.list_users | def list_users(self):
''' a method to list all the user ids of all users in the bucket '''
# construct url
url = self.bucket_url + '/_user/'
# send request and unwrap response
response = requests.get(url)
response = response.json()
return response | python | def list_users(self):
''' a method to list all the user ids of all users in the bucket '''
# construct url
url = self.bucket_url + '/_user/'
# send request and unwrap response
response = requests.get(url)
response = response.json()
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collectiveacuity/labPack | labpack/databases/couchbase.py | syncGatewayClient.save_user | def save_user(self, uid, user_password, user_email='', user_channels=None, user_roles=None, user_views=None, disable_account=False):
'''
a method to add or update an authorized user to the bucket
:param uid: string with id to assign to user
:param user_password: string ... | python | def save_user(self, uid, user_password, user_email='', user_channels=None, user_roles=None, user_views=None, disable_account=False):
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collectiveacuity/labPack | labpack/databases/couchbase.py | syncGatewayClient.load_user | def load_user(self, uid):
'''
a method to retrieve the account details of a user in the bucket
:param uid: string with id of user in bucket
:return: dictionary with account fields for user
'''
title = '%s.load_user' % self.__class__.__name__
... | python | def load_user(self, uid):
'''
a method to retrieve the account details of a user in the bucket
:param uid: string with id of user in bucket
:return: dictionary with account fields for user
'''
title = '%s.load_user' % self.__class__.__name__
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collectiveacuity/labPack | labpack/databases/couchbase.py | syncGatewayClient.delete_user | def delete_user(self, uid, delete_views=True):
'''
a method to retrieve the account details of a user in the bucket
:param uid: string with id of user in bucket
:param delete_views: boolean to remove indices attached to user
:return: integer with status ... | python | def delete_user(self, uid, delete_views=True):
'''
a method to retrieve the account details of a user in the bucket
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:param delete_views: boolean to remove indices attached to user
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collectiveacuity/labPack | labpack/databases/couchbase.py | syncGatewayClient.create_session | def create_session(self, uid, duration=0):
'''
a method to create a session token for the user
:param uid: string with id of user in bucket
:param duration: integer with number of seconds to last (default: 24hrs)
:return: dictionary with account fields for user... | python | def create_session(self, uid, duration=0):
'''
a method to create a session token for the user
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:param duration: integer with number of seconds to last (default: 24hrs)
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collectiveacuity/labPack | labpack/databases/couchbase.py | syncGatewayClient.delete_sessions | def delete_sessions(self, uid):
'''
a method to delete all session tokens associated with a user
:param uid: string with id of user in bucket
:return: integer with status code of delete operation
'''
title = '%s.delete_session' % self.__clas... | python | def delete_sessions(self, uid):
'''
a method to delete all session tokens associated with a user
:param uid: string with id of user in bucket
:return: integer with status code of delete operation
'''
title = '%s.delete_session' % self.__clas... | [
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