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tknapen/FIRDeconvolution | src/FIRDeconvolution.py | FIRDeconvolution.predict_from_design_matrix | def predict_from_design_matrix(self, design_matrix):
"""predict_from_design_matrix predicts signals given a design matrix.
:param design_matrix: design matrix from which to predict a signal.
:type design_matrix: numpy array, (nr_samples x betas.shape)
:returns: predicted sig... | python | def predict_from_design_matrix(self, design_matrix):
"""predict_from_design_matrix predicts signals given a design matrix.
:param design_matrix: design matrix from which to predict a signal.
:type design_matrix: numpy array, (nr_samples x betas.shape)
:returns: predicted sig... | [
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:type design_matrix: numpy array, (nr_samples x betas.shape)
:returns: predicted signal(s)
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tknapen/FIRDeconvolution | src/FIRDeconvolution.py | FIRDeconvolution.calculate_rsq | def calculate_rsq(self):
"""calculate_rsq calculates coefficient of determination, or r-squared, defined here as 1.0 - SS_res / SS_tot. rsq is only calculated for those timepoints in the data for which the design matrix is non-zero.
"""
assert hasattr(self, 'betas'), 'no betas found, please run ... | python | def calculate_rsq(self):
"""calculate_rsq calculates coefficient of determination, or r-squared, defined here as 1.0 - SS_res / SS_tot. rsq is only calculated for those timepoints in the data for which the design matrix is non-zero.
"""
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tknapen/FIRDeconvolution | src/FIRDeconvolution.py | FIRDeconvolution.bootstrap_on_residuals | def bootstrap_on_residuals(self, nr_repetitions = 1000):
"""bootstrap_on_residuals bootstraps, by shuffling the residuals. bootstrap_on_residuals should only be used on single-channel data, as otherwise the memory load might increase too much. This uses the lstsq backend regression for a single-pass fit across ... | python | def bootstrap_on_residuals(self, nr_repetitions = 1000):
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cga-harvard/Hypermap-Registry | hypermap/context_processors.py | resource_urls | def resource_urls(request):
"""Global values to pass to templates"""
url_parsed = urlparse(settings.SEARCH_URL)
defaults = dict(
APP_NAME=__description__,
APP_VERSION=__version__,
SITE_URL=settings.SITE_URL.rstrip('/'),
SEARCH_TYPE=settings.SEARCH_TYPE,
SEARCH_URL=se... | python | def resource_urls(request):
"""Global values to pass to templates"""
url_parsed = urlparse(settings.SEARCH_URL)
defaults = dict(
APP_NAME=__description__,
APP_VERSION=__version__,
SITE_URL=settings.SITE_URL.rstrip('/'),
SEARCH_TYPE=settings.SEARCH_TYPE,
SEARCH_URL=se... | [
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cga-harvard/Hypermap-Registry | hypermap/aggregator/tasks.py | index_cached_layers | def index_cached_layers(self):
"""
Index and unindex all layers in the Django cache (Index all layers who have been checked).
"""
from hypermap.aggregator.models import Layer
if SEARCH_TYPE == 'solr':
from hypermap.aggregator.solr import SolrHypermap
solrobject = SolrHypermap()
... | python | def index_cached_layers(self):
"""
Index and unindex all layers in the Django cache (Index all layers who have been checked).
"""
from hypermap.aggregator.models import Layer
if SEARCH_TYPE == 'solr':
from hypermap.aggregator.solr import SolrHypermap
solrobject = SolrHypermap()
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cga-harvard/Hypermap-Registry | hypermap/aggregator/tasks.py | remove_service_checks | def remove_service_checks(self, service_id):
"""
Remove all checks from a service.
"""
from hypermap.aggregator.models import Service
service = Service.objects.get(id=service_id)
service.check_set.all().delete()
layer_to_process = service.layer_set.all()
for layer in layer_to_process:
... | python | def remove_service_checks(self, service_id):
"""
Remove all checks from a service.
"""
from hypermap.aggregator.models import Service
service = Service.objects.get(id=service_id)
service.check_set.all().delete()
layer_to_process = service.layer_set.all()
for layer in layer_to_process:
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cga-harvard/Hypermap-Registry | hypermap/aggregator/tasks.py | index_service | def index_service(self, service_id):
"""
Index a service in search engine.
"""
from hypermap.aggregator.models import Service
service = Service.objects.get(id=service_id)
if not service.is_valid:
LOGGER.debug('Not indexing service with id %s in search engine as it is not valid' % servi... | python | def index_service(self, service_id):
"""
Index a service in search engine.
"""
from hypermap.aggregator.models import Service
service = Service.objects.get(id=service_id)
if not service.is_valid:
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cga-harvard/Hypermap-Registry | hypermap/aggregator/tasks.py | index_layer | def index_layer(self, layer_id, use_cache=False):
"""
Index a layer in the search backend.
If cache is set, append it to the list, if it isn't send the transaction right away.
cache needs memcached to be available.
"""
from hypermap.aggregator.models import Layer
layer = Layer.objects.get(i... | python | def index_layer(self, layer_id, use_cache=False):
"""
Index a layer in the search backend.
If cache is set, append it to the list, if it isn't send the transaction right away.
cache needs memcached to be available.
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cga-harvard/Hypermap-Registry | hypermap/aggregator/tasks.py | unindex_layers_with_issues | def unindex_layers_with_issues(self, use_cache=False):
"""
Remove the index for layers in search backend, which are linked to an issue.
"""
from hypermap.aggregator.models import Issue, Layer, Service
from django.contrib.contenttypes.models import ContentType
layer_type = ContentType.objects.ge... | python | def unindex_layers_with_issues(self, use_cache=False):
"""
Remove the index for layers in search backend, which are linked to an issue.
"""
from hypermap.aggregator.models import Issue, Layer, Service
from django.contrib.contenttypes.models import ContentType
layer_type = ContentType.objects.ge... | [
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cga-harvard/Hypermap-Registry | hypermap/aggregator/tasks.py | unindex_layer | def unindex_layer(self, layer_id, use_cache=False):
"""
Remove the index for a layer in the search backend.
If cache is set, append it to the list of removed layers, if it isn't send the transaction right away.
"""
from hypermap.aggregator.models import Layer
layer = Layer.objects.get(id=layer_... | python | def unindex_layer(self, layer_id, use_cache=False):
"""
Remove the index for a layer in the search backend.
If cache is set, append it to the list of removed layers, if it isn't send the transaction right away.
"""
from hypermap.aggregator.models import Layer
layer = Layer.objects.get(id=layer_... | [
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cga-harvard/Hypermap-Registry | hypermap/aggregator/tasks.py | index_all_layers | def index_all_layers(self):
"""
Index all layers in search engine.
"""
from hypermap.aggregator.models import Layer
if not settings.REGISTRY_SKIP_CELERY:
layers_cache = set(Layer.objects.filter(is_valid=True).values_list('id', flat=True))
deleted_layers_cache = set(Layer.objects.fil... | python | def index_all_layers(self):
"""
Index all layers in search engine.
"""
from hypermap.aggregator.models import Layer
if not settings.REGISTRY_SKIP_CELERY:
layers_cache = set(Layer.objects.filter(is_valid=True).values_list('id', flat=True))
deleted_layers_cache = set(Layer.objects.fil... | [
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cga-harvard/Hypermap-Registry | hypermap/aggregator/tasks.py | update_last_wm_layers | def update_last_wm_layers(self, service_id, num_layers=10):
"""
Update and index the last added and deleted layers (num_layers) in WorldMap service.
"""
from hypermap.aggregator.models import Service
LOGGER.debug(
'Updating the index the last %s added and %s deleted layers in WorldMap servi... | python | def update_last_wm_layers(self, service_id, num_layers=10):
"""
Update and index the last added and deleted layers (num_layers) in WorldMap service.
"""
from hypermap.aggregator.models import Service
LOGGER.debug(
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cga-harvard/Hypermap-Registry | hypermap/aggregator/models.py | bbox2wktpolygon | def bbox2wktpolygon(bbox):
"""
Return OGC WKT Polygon of a simple bbox list
"""
try:
minx = float(bbox[0])
miny = float(bbox[1])
maxx = float(bbox[2])
maxy = float(bbox[3])
except:
LOGGER.debug("Invalid bbox, setting it to a zero POLYGON")
minx = 0
... | python | def bbox2wktpolygon(bbox):
"""
Return OGC WKT Polygon of a simple bbox list
"""
try:
minx = float(bbox[0])
miny = float(bbox[1])
maxx = float(bbox[2])
maxy = float(bbox[3])
except:
LOGGER.debug("Invalid bbox, setting it to a zero POLYGON")
minx = 0
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cga-harvard/Hypermap-Registry | hypermap/aggregator/models.py | create_metadata_record | def create_metadata_record(**kwargs):
"""
Create a csw:Record XML document from harvested metadata
"""
if 'srs' in kwargs:
srs = kwargs['srs']
else:
srs = '4326'
modified = '%sZ' % datetime.datetime.utcnow().isoformat().split('.')[0]
nsmap = Namespaces().get_namespaces(['c... | python | def create_metadata_record(**kwargs):
"""
Create a csw:Record XML document from harvested metadata
"""
if 'srs' in kwargs:
srs = kwargs['srs']
else:
srs = '4326'
modified = '%sZ' % datetime.datetime.utcnow().isoformat().split('.')[0]
nsmap = Namespaces().get_namespaces(['c... | [
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cga-harvard/Hypermap-Registry | hypermap/aggregator/models.py | gen_anytext | def gen_anytext(*args):
"""
Convenience function to create bag of words for anytext property
"""
bag = []
for term in args:
if term is not None:
if isinstance(term, list):
for term2 in term:
if term2 is not None:
bag.a... | python | def gen_anytext(*args):
"""
Convenience function to create bag of words for anytext property
"""
bag = []
for term in args:
if term is not None:
if isinstance(term, list):
for term2 in term:
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cga-harvard/Hypermap-Registry | hypermap/aggregator/models.py | update_layers_wmts | def update_layers_wmts(service):
"""
Update layers for an OGC:WMTS service.
Sample endpoint: http://map1.vis.earthdata.nasa.gov/wmts-geo/1.0.0/WMTSCapabilities.xml
"""
try:
wmts = WebMapTileService(service.url)
# set srs
# WMTS is always in 4326
srs, created = Spatia... | python | def update_layers_wmts(service):
"""
Update layers for an OGC:WMTS service.
Sample endpoint: http://map1.vis.earthdata.nasa.gov/wmts-geo/1.0.0/WMTSCapabilities.xml
"""
try:
wmts = WebMapTileService(service.url)
# set srs
# WMTS is always in 4326
srs, created = Spatia... | [
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cga-harvard/Hypermap-Registry | hypermap/aggregator/models.py | update_layers_geonode_wm | def update_layers_geonode_wm(service, num_layers=None):
"""
Update layers for a WorldMap instance.
Sample endpoint: http://localhost:8000/
"""
wm_api_url = urlparse.urljoin(service.url, 'worldmap/api/2.8/layer/?format=json')
if num_layers:
total = num_layers
else:
response =... | python | def update_layers_geonode_wm(service, num_layers=None):
"""
Update layers for a WorldMap instance.
Sample endpoint: http://localhost:8000/
"""
wm_api_url = urlparse.urljoin(service.url, 'worldmap/api/2.8/layer/?format=json')
if num_layers:
total = num_layers
else:
response =... | [
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cga-harvard/Hypermap-Registry | hypermap/aggregator/models.py | update_layers_warper | def update_layers_warper(service):
"""
Update layers for a Warper service.
Sample endpoint: http://warp.worldmap.harvard.edu/maps
"""
params = {'field': 'title', 'query': '', 'show_warped': '1', 'format': 'json'}
headers = {'Content-Type': 'application/json', 'Accept': 'application/json'}
re... | python | def update_layers_warper(service):
"""
Update layers for a Warper service.
Sample endpoint: http://warp.worldmap.harvard.edu/maps
"""
params = {'field': 'title', 'query': '', 'show_warped': '1', 'format': 'json'}
headers = {'Content-Type': 'application/json', 'Accept': 'application/json'}
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cga-harvard/Hypermap-Registry | hypermap/aggregator/models.py | update_layers_esri_mapserver | def update_layers_esri_mapserver(service, greedy_opt=False):
"""
Update layers for an ESRI REST MapServer.
Sample endpoint: https://gis.ngdc.noaa.gov/arcgis/rest/services/SampleWorldCities/MapServer/?f=json
"""
try:
esri_service = ArcMapService(service.url)
# set srs
# both m... | python | def update_layers_esri_mapserver(service, greedy_opt=False):
"""
Update layers for an ESRI REST MapServer.
Sample endpoint: https://gis.ngdc.noaa.gov/arcgis/rest/services/SampleWorldCities/MapServer/?f=json
"""
try:
esri_service = ArcMapService(service.url)
# set srs
# both m... | [
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cga-harvard/Hypermap-Registry | hypermap/aggregator/models.py | update_layers_esri_imageserver | def update_layers_esri_imageserver(service):
"""
Update layers for an ESRI REST ImageServer.
Sample endpoint: https://gis.ngdc.noaa.gov/arcgis/rest/services/bag_bathymetry/ImageServer/?f=json
"""
try:
esri_service = ArcImageService(service.url)
# set srs
# both mapserver and ... | python | def update_layers_esri_imageserver(service):
"""
Update layers for an ESRI REST ImageServer.
Sample endpoint: https://gis.ngdc.noaa.gov/arcgis/rest/services/bag_bathymetry/ImageServer/?f=json
"""
try:
esri_service = ArcImageService(service.url)
# set srs
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cga-harvard/Hypermap-Registry | hypermap/aggregator/models.py | endpointlist_post_save | def endpointlist_post_save(instance, *args, **kwargs):
"""
Used to process the lines of the endpoint list.
"""
with open(instance.upload.file.name, mode='rb') as f:
lines = f.readlines()
for url in lines:
if len(url) > 255:
LOGGER.debug('Skipping this endpoint, as it is m... | python | def endpointlist_post_save(instance, *args, **kwargs):
"""
Used to process the lines of the endpoint list.
"""
with open(instance.upload.file.name, mode='rb') as f:
lines = f.readlines()
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cga-harvard/Hypermap-Registry | hypermap/aggregator/models.py | service_pre_save | def service_pre_save(instance, *args, **kwargs):
"""
Used to do a service full check when saving it.
"""
# check if service is unique
# we cannot use unique_together as it relies on a combination of fields
# from different models (service, resource)
exists = Service.objects.filter(url=insta... | python | def service_pre_save(instance, *args, **kwargs):
"""
Used to do a service full check when saving it.
"""
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cga-harvard/Hypermap-Registry | hypermap/aggregator/models.py | service_post_save | def service_post_save(instance, *args, **kwargs):
"""
Used to do a service full check when saving it.
"""
# check service
if instance.is_monitored and settings.REGISTRY_SKIP_CELERY:
check_service(instance.id)
elif instance.is_monitored:
check_service.delay(instance.id) | python | def service_post_save(instance, *args, **kwargs):
"""
Used to do a service full check when saving it.
"""
# check service
if instance.is_monitored and settings.REGISTRY_SKIP_CELERY:
check_service(instance.id)
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cga-harvard/Hypermap-Registry | hypermap/aggregator/models.py | layer_pre_save | def layer_pre_save(instance, *args, **kwargs):
"""
Used to check layer validity.
"""
is_valid = True
# we do not need to check validity for WM layers
if not instance.service.type == 'Hypermap:WorldMap':
# 0. a layer is invalid if its service its invalid as well
if not instance... | python | def layer_pre_save(instance, *args, **kwargs):
"""
Used to check layer validity.
"""
is_valid = True
# we do not need to check validity for WM layers
if not instance.service.type == 'Hypermap:WorldMap':
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cga-harvard/Hypermap-Registry | hypermap/aggregator/models.py | layer_post_save | def layer_post_save(instance, *args, **kwargs):
"""
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"""
if instance.is_monitored and instance.service.is_monitored: # index and monitor
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else:
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"""
Used to do a layer full check when saving it.
"""
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cga-harvard/Hypermap-Registry | hypermap/aggregator/models.py | issue_post_delete | def issue_post_delete(instance, *args, **kwargs):
"""
Used to do reindex layers/services when a issue is removed form them.
"""
LOGGER.debug('Re-adding layer/service to search engine index')
if isinstance(instance.content_object, Service):
if not settings.REGISTRY_SKIP_CELERY:
in... | python | def issue_post_delete(instance, *args, **kwargs):
"""
Used to do reindex layers/services when a issue is removed form them.
"""
LOGGER.debug('Re-adding layer/service to search engine index')
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cga-harvard/Hypermap-Registry | hypermap/aggregator/models.py | Resource.get_checks_admin_reliability_warning_url | def get_checks_admin_reliability_warning_url(self):
"""
When service Realiability is going down users should go to the
the check history to find problem causes.
:return: admin url with check list for this instance
"""
# TODO: cache this.
path = self.get_checks_adm... | python | def get_checks_admin_reliability_warning_url(self):
"""
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cga-harvard/Hypermap-Registry | hypermap/aggregator/models.py | Service.update_layers | def update_layers(self):
"""
Update layers for a service.
"""
signals.post_save.disconnect(layer_post_save, sender=Layer)
try:
LOGGER.debug('Updating layers for service id %s' % self.id)
if self.type == 'OGC:WMS':
update_layers_wms(self)
... | python | def update_layers(self):
"""
Update layers for a service.
"""
signals.post_save.disconnect(layer_post_save, sender=Layer)
try:
LOGGER.debug('Updating layers for service id %s' % self.id)
if self.type == 'OGC:WMS':
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cga-harvard/Hypermap-Registry | hypermap/aggregator/models.py | Service.check_available | def check_available(self):
"""
Check for availability of a service and provide run metrics.
"""
success = True
start_time = datetime.datetime.utcnow()
message = ''
LOGGER.debug('Checking service id %s' % self.id)
try:
title = None
... | python | def check_available(self):
"""
Check for availability of a service and provide run metrics.
"""
success = True
start_time = datetime.datetime.utcnow()
message = ''
LOGGER.debug('Checking service id %s' % self.id)
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cga-harvard/Hypermap-Registry | hypermap/aggregator/models.py | Service.update_validity | def update_validity(self):
"""
Update validity of a service.
"""
# WM is always valid
if self.type == 'Hypermap:WorldMap':
return
signals.post_save.disconnect(service_post_save, sender=Service)
try:
# some service now must be considered... | python | def update_validity(self):
"""
Update validity of a service.
"""
# WM is always valid
if self.type == 'Hypermap:WorldMap':
return
signals.post_save.disconnect(service_post_save, sender=Service)
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cga-harvard/Hypermap-Registry | hypermap/aggregator/models.py | Catalog.get_search_url | def get_search_url(self):
"""
resolve the search url no matter if local or remote.
:return: url or exception
"""
if self.is_remote:
return self.url
return reverse('search_api', args=[self.slug]) | python | def get_search_url(self):
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resolve the search url no matter if local or remote.
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cga-harvard/Hypermap-Registry | hypermap/aggregator/models.py | Layer.get_url_endpoint | def get_url_endpoint(self):
"""
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"""
endpoint = self.url
if self.type not in ('Hypermap:WorldMap',):
endpoint = 'registry/%s/l... | python | def get_url_endpoint(self):
"""
Returns the Hypermap endpoint for a layer.
This endpoint will be the WMTS MapProxy endpoint, only for WM we use the original endpoint.
"""
endpoint = self.url
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cga-harvard/Hypermap-Registry | hypermap/aggregator/models.py | Layer.check_available | def check_available(self):
"""
Check for availability of a layer and provide run metrics.
"""
success = True
start_time = datetime.datetime.utcnow()
message = ''
LOGGER.debug('Checking layer id %s' % self.id)
signals.post_save.disconnect(layer_post_save, ... | python | def check_available(self):
"""
Check for availability of a layer and provide run metrics.
"""
success = True
start_time = datetime.datetime.utcnow()
message = ''
LOGGER.debug('Checking layer id %s' % self.id)
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cga-harvard/Hypermap-Registry | hypermap/aggregator/models.py | Layer.registry_tags | def registry_tags(self, query_string='{http://gis.harvard.edu/HHypermap/registry/0.1}property'):
"""
Get extra metadata tagged with a registry keyword.
For example:
<registry:property name="nomination/serviceOwner" value="True"/>
<registry:property name="nominator/name" v... | python | def registry_tags(self, query_string='{http://gis.harvard.edu/HHypermap/registry/0.1}property'):
"""
Get extra metadata tagged with a registry keyword.
For example:
<registry:property name="nomination/serviceOwner" value="True"/>
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sethmlarson/trytravis | trytravis.py | _input_github_repo | def _input_github_repo(url=None):
""" Grabs input from the user and saves
it as their trytravis target repo """
if url is None:
url = user_input('Input the URL of the GitHub repository '
'to use as a `trytravis` repository: ')
url = url.strip()
http_match = _HTTPS_RE... | python | def _input_github_repo(url=None):
""" Grabs input from the user and saves
it as their trytravis target repo """
if url is None:
url = user_input('Input the URL of the GitHub repository '
'to use as a `trytravis` repository: ')
url = url.strip()
http_match = _HTTPS_RE... | [
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sethmlarson/trytravis | trytravis.py | _load_github_repo | def _load_github_repo():
""" Loads the GitHub repository from the users config. """
if 'TRAVIS' in os.environ:
raise RuntimeError('Detected that we are running in Travis. '
'Stopping to prevent infinite loops.')
try:
with open(os.path.join(config_dir, 'repo'), 'r')... | python | def _load_github_repo():
""" Loads the GitHub repository from the users config. """
if 'TRAVIS' in os.environ:
raise RuntimeError('Detected that we are running in Travis. '
'Stopping to prevent infinite loops.')
try:
with open(os.path.join(config_dir, 'repo'), 'r')... | [
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sethmlarson/trytravis | trytravis.py | _submit_changes_to_github_repo | def _submit_changes_to_github_repo(path, url):
""" Temporarily commits local changes and submits them to
the GitHub repository that the user has specified. Then
reverts the changes to the git repository if a commit was
necessary. """
try:
repo = git.Repo(path)
except Exception:
r... | python | def _submit_changes_to_github_repo(path, url):
""" Temporarily commits local changes and submits them to
the GitHub repository that the user has specified. Then
reverts the changes to the git repository if a commit was
necessary. """
try:
repo = git.Repo(path)
except Exception:
r... | [
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sethmlarson/trytravis | trytravis.py | _wait_for_travis_build | def _wait_for_travis_build(url, commit, committed_at):
""" Waits for a Travis build to appear with the given commit SHA """
print('Waiting for a Travis build to appear '
'for `%s` after `%s`...' % (commit, committed_at))
import requests
slug = _slug_from_url(url)
start_time = time.time()
... | python | def _wait_for_travis_build(url, commit, committed_at):
""" Waits for a Travis build to appear with the given commit SHA """
print('Waiting for a Travis build to appear '
'for `%s` after `%s`...' % (commit, committed_at))
import requests
slug = _slug_from_url(url)
start_time = time.time()
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sethmlarson/trytravis | trytravis.py | _watch_travis_build | def _watch_travis_build(build_id):
""" Watches and progressively outputs information
about a given Travis build """
import requests
try:
build_size = None # type: int
running = True
while running:
with requests.get('https://api.travis-ci.org/builds/%d' % build_id,
... | python | def _watch_travis_build(build_id):
""" Watches and progressively outputs information
about a given Travis build """
import requests
try:
build_size = None # type: int
running = True
while running:
with requests.get('https://api.travis-ci.org/builds/%d' % build_id,
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sethmlarson/trytravis | trytravis.py | _travis_job_state | def _travis_job_state(state):
""" Converts a Travis state into a state character, color,
and whether it's still running or a stopped state. """
if state in [None, 'queued', 'created', 'received']:
return colorama.Fore.YELLOW, '*', True
elif state in ['started', 'running']:
return coloram... | python | def _travis_job_state(state):
""" Converts a Travis state into a state character, color,
and whether it's still running or a stopped state. """
if state in [None, 'queued', 'created', 'received']:
return colorama.Fore.YELLOW, '*', True
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sethmlarson/trytravis | trytravis.py | _slug_from_url | def _slug_from_url(url):
""" Parses a project slug out of either an HTTPS or SSH URL. """
http_match = _HTTPS_REGEX.match(url)
ssh_match = _SSH_REGEX.match(url)
if not http_match and not ssh_match:
raise RuntimeError('Could not parse the URL (`%s`) '
'for your reposito... | python | def _slug_from_url(url):
""" Parses a project slug out of either an HTTPS or SSH URL. """
http_match = _HTTPS_REGEX.match(url)
ssh_match = _SSH_REGEX.match(url)
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sethmlarson/trytravis | trytravis.py | _version_string | def _version_string():
""" Gets the output for `trytravis --version`. """
platform_system = platform.system()
if platform_system == 'Linux':
os_name, os_version, _ = platform.dist()
else:
os_name = platform_system
os_version = platform.version()
python_version = platform.pyth... | python | def _version_string():
""" Gets the output for `trytravis --version`. """
platform_system = platform.system()
if platform_system == 'Linux':
os_name, os_version, _ = platform.dist()
else:
os_name = platform_system
os_version = platform.version()
python_version = platform.pyth... | [
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sethmlarson/trytravis | trytravis.py | _main | def _main(argv):
""" Function that acts just like main() except
doesn't catch exceptions. """
repo_input_argv = len(argv) == 2 and argv[0] in ['--repo', '-r', '-R']
# We only support a single argv parameter.
if len(argv) > 1 and not repo_input_argv:
_main(['--help'])
# Parse the comman... | python | def _main(argv):
""" Function that acts just like main() except
doesn't catch exceptions. """
repo_input_argv = len(argv) == 2 and argv[0] in ['--repo', '-r', '-R']
# We only support a single argv parameter.
if len(argv) > 1 and not repo_input_argv:
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sethmlarson/trytravis | trytravis.py | main | def main(argv=None): # pragma: no coverage
""" Main entry point when the user runs the `trytravis` command. """
try:
colorama.init()
if argv is None:
argv = sys.argv[1:]
_main(argv)
except RuntimeError as e:
print(colorama.Fore.RED + 'ERROR: ' +
str... | python | def main(argv=None): # pragma: no coverage
""" Main entry point when the user runs the `trytravis` command. """
try:
colorama.init()
if argv is None:
argv = sys.argv[1:]
_main(argv)
except RuntimeError as e:
print(colorama.Fore.RED + 'ERROR: ' +
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cga-harvard/Hypermap-Registry | hypermap/search/views.py | csw_global_dispatch | def csw_global_dispatch(request, url=None, catalog_id=None):
"""pycsw wrapper"""
if request.user.is_authenticated(): # turn on CSW-T
settings.REGISTRY_PYCSW['manager']['transactions'] = 'true'
env = request.META.copy()
# TODO: remove this workaround
# HH should be able to pass env['wsgi.... | python | def csw_global_dispatch(request, url=None, catalog_id=None):
"""pycsw wrapper"""
if request.user.is_authenticated(): # turn on CSW-T
settings.REGISTRY_PYCSW['manager']['transactions'] = 'true'
env = request.META.copy()
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cga-harvard/Hypermap-Registry | hypermap/search/views.py | csw_global_dispatch_by_catalog | def csw_global_dispatch_by_catalog(request, catalog_slug):
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if catalog: # define catalog specific settings
url = settings.SITE_URL.rstrip('/') + request.path.rstrip('/')
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"""pycsw wrapper for catalogs"""
catalog = get_object_or_404(Catalog, slug=catalog_slug)
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cga-harvard/Hypermap-Registry | hypermap/search/views.py | opensearch_dispatch | def opensearch_dispatch(request):
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cga-harvard/Hypermap-Registry | hypermap/aggregator/elasticsearch_client.py | ESHypermap.good_coords | def good_coords(coords):
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cga-harvard/Hypermap-Registry | hypermap/aggregator/elasticsearch_client.py | ESHypermap.clear_es | def clear_es():
"""Clear all indexes in the es core"""
# TODO: should receive a catalog slug.
ESHypermap.es.indices.delete(ESHypermap.index_name, ignore=[400, 404])
LOGGER.debug('Elasticsearch: Index cleared') | python | def clear_es():
"""Clear all indexes in the es core"""
# TODO: should receive a catalog slug.
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cga-harvard/Hypermap-Registry | hypermap/aggregator/elasticsearch_client.py | ESHypermap.create_indices | def create_indices(catalog_slug):
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# TODO: enable auto_create_index in the ES nodes to make this implicit.
# https://www.elastic.co/guide/en/elasticsearch/reference/current/docs-index_.html#index-creation
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"""Create ES core indices """
# TODO: enable auto_create_index in the ES nodes to make this implicit.
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cga-harvard/Hypermap-Registry | pavement.py | kill_process | def kill_process(procname, scriptname):
"""kill WSGI processes that may be running in development"""
# from http://stackoverflow.com/a/2940878
import signal
import subprocess
p = subprocess.Popen(['ps', 'aux'], stdout=subprocess.PIPE)
out, err = p.communicate()
for line in out.decode().sp... | python | def kill_process(procname, scriptname):
"""kill WSGI processes that may be running in development"""
# from http://stackoverflow.com/a/2940878
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import subprocess
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cga-harvard/Hypermap-Registry | hypermap/aggregator/populate_database.py | populate_initial_services | def populate_initial_services():
"""
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"""
services_list = (
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"""
Populate a fresh installed Hypermap instances with basic services.
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cga-harvard/Hypermap-Registry | hypermap/search_api/views.py | elasticsearch | def elasticsearch(serializer, catalog):
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https://www.elastic.co/guide/en/elasticsearch/reference/current/_the_search_api.html
:param serializer:
:return:
"""
search_engine_endpoint = "{0}/{1}/_search".format(SEARCH_URL, catalog.slug)
q_text = serializer.validated_data.get("q_text")
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"""
https://www.elastic.co/guide/en/elasticsearch/reference/current/_the_search_api.html
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search_engine_endpoint = "{0}/{1}/_search".format(SEARCH_URL, catalog.slug)
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cga-harvard/Hypermap-Registry | hypermap/search_api/views.py | solr | def solr(serializer):
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Search on solr endpoint
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"""
Search on solr endpoint
:param serializer:
:return:
"""
search_engine_endpoint = serializer.validated_data.get("search_engine_endpoint")
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cga-harvard/Hypermap-Registry | hypermap/search_api/views.py | parse_get_params | def parse_get_params(request):
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:return: QueryDict with ... | python | def parse_get_params(request):
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parse all url get params that contains dots in a representation of
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konikvranik/pyCEC | pycec/tcp.py | main | def main():
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hdmi_network.start()
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time.sleep(7) | python | def main():
"""For testing purpose"""
tcp_adapter = TcpAdapter("192.168.1.3", name="HASS", activate_source=False)
hdmi_network = HDMINetwork(tcp_adapter)
hdmi_network.start()
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diffeo/py-nilsimsa | nilsimsa/deprecated/_deprecated_nilsimsa.py | compare_hexdigests | def compare_hexdigests( digest1, digest2 ):
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digest1 = tuple([int(digest1[i:i+2],16) for i in range(0,63,2)])
digest2 = tuple([int(di... | python | def compare_hexdigests( digest1, digest2 ):
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ch = character
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"""Get digest of data seen thus far as a list of bytes."""
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diffeo/py-nilsimsa | nilsimsa/deprecated/_deprecated_nilsimsa.py | Nilsimsa.from_file | def from_file(self, filename):
"""Update running digest with content of named file."""
f = open(filename, 'rb')
while True:
data = f.read(10480)
if not data:
break
self.update(data)
f.close() | python | def from_file(self, filename):
"""Update running digest with content of named file."""
f = open(filename, 'rb')
while True:
data = f.read(10480)
if not data:
break
self.update(data)
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CloudGenix/sdk-python | cloudgenix/__init__.py | jdout | def jdout(api_response):
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**Parameters:**
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"""
JD Output function. Does quick pretty printing of a CloudGenix Response body. This function returns a string
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**Parameters:**
- **api_response:** A CloudGenix-attribute extended `requests.Response` object
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CloudGenix/sdk-python | cloudgenix/__init__.py | jdout_detailed | def jdout_detailed(api_response, sensitive=False):
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"""
JD Output Detailed function. Meant for quick DETAILED pretty-printing of CloudGenix Request and Response
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CloudGenix/sdk-python | cloudgenix/__init__.py | API.notify_for_new_version | def notify_for_new_version(self):
"""
Check for a new version of the SDK on API constructor instantiation. If new version found, print
Notification to STDERR.
On failure of this check, fail silently.
**Returns:** No item returned, directly prints notification to `sys.stderr`.
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"""
Check for a new version of the SDK on API constructor instantiation. If new version found, print
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On failure of this check, fail silently.
**Returns:** No item returned, directly prints notification to `sys.stderr`.
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CloudGenix/sdk-python | cloudgenix/__init__.py | API.ssl_verify | def ssl_verify(self, ssl_verify):
"""
Modify ssl verification settings
**Parameters:**
- ssl_verify:
- True: Verify using builtin BYTE_CA_BUNDLE.
- False: No SSL Verification.
- Str: Full path to a x509 PEM CA File or bundle.
**Returns:... | python | def ssl_verify(self, ssl_verify):
"""
Modify ssl verification settings
**Parameters:**
- ssl_verify:
- True: Verify using builtin BYTE_CA_BUNDLE.
- False: No SSL Verification.
- Str: Full path to a x509 PEM CA File or bundle.
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CloudGenix/sdk-python | cloudgenix/__init__.py | API.modify_rest_retry | def modify_rest_retry(self, total=8, connect=None, read=None, redirect=None, status=None,
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method_whitelist=urllib3.util.retry.Retry.DEFAULT_METHOD_WHITELIST, status_forcelist=None,
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CloudGenix/sdk-python | cloudgenix/__init__.py | API.view_rest_retry | def view_rest_retry(self, url=None):
"""
View current rest retry settings in the `requests.Session()` object
**Parameters:**
- **url:** URL to use to determine retry methods for. Defaults to 'https://'
**Returns:** Dict, Key header, value is header value.
"""
... | python | def view_rest_retry(self, url=None):
"""
View current rest retry settings in the `requests.Session()` object
**Parameters:**
- **url:** URL to use to determine retry methods for. Defaults to 'https://'
**Returns:** Dict, Key header, value is header value.
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CloudGenix/sdk-python | cloudgenix/__init__.py | API.view_cookies | def view_cookies(self):
"""
View current cookies in the `requests.Session()` object
**Returns:** List of Dicts, one cookie per Dict.
"""
return_list = []
for cookie in self._session.cookies:
return_list.append(vars(cookie))
return return_list | python | def view_cookies(self):
"""
View current cookies in the `requests.Session()` object
**Returns:** List of Dicts, one cookie per Dict.
"""
return_list = []
for cookie in self._session.cookies:
return_list.append(vars(cookie))
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CloudGenix/sdk-python | cloudgenix/__init__.py | API.set_debug | def set_debug(self, debuglevel):
"""
Change the debug level of the API
**Returns:** No item returned.
"""
if isinstance(debuglevel, int):
self._debuglevel = debuglevel
if self._debuglevel == 1:
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... | python | def set_debug(self, debuglevel):
"""
Change the debug level of the API
**Returns:** No item returned.
"""
if isinstance(debuglevel, int):
self._debuglevel = debuglevel
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CloudGenix/sdk-python | cloudgenix/__init__.py | API._subclass_container | def _subclass_container(self):
"""
Call subclasses via function to allow passing parent namespace to subclasses.
**Returns:** dict with subclass references.
"""
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def __init__(self):
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Call subclasses via function to allow passing parent namespace to subclasses.
**Returns:** dict with subclass references.
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CloudGenix/sdk-python | cloudgenix/__init__.py | API.rest_call | def rest_call(self, url, method, data=None, sensitive=False, timeout=None, content_json=True,
retry=None, max_retry=None, retry_sleep=None):
"""
Generic REST call worker function
**Parameters:**
- **url:** URL for the REST call
- **method:** METHOD for the... | python | def rest_call(self, url, method, data=None, sensitive=False, timeout=None, content_json=True,
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Generic REST call worker function
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CloudGenix/sdk-python | cloudgenix/__init__.py | API._cleanup_ca_temp_file | def _cleanup_ca_temp_file(self):
"""
Function to clean up ca temp file for requests.
**Returns:** Removes TEMP ca file, no return
"""
if os.name == 'nt':
if isinstance(self.ca_verify_filename, (binary_type, text_type)):
# windows requires file to be c... | python | def _cleanup_ca_temp_file(self):
"""
Function to clean up ca temp file for requests.
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CloudGenix/sdk-python | cloudgenix/__init__.py | API.parse_auth_token | def parse_auth_token(self, auth_token):
"""
Break auth_token up into it's constituent values.
**Parameters:**
- **auth_token:** Auth_token string
**Returns:** dict with Auth Token constituents
"""
# remove the random security key value from the front of the a... | python | def parse_auth_token(self, auth_token):
"""
Break auth_token up into it's constituent values.
**Parameters:**
- **auth_token:** Auth_token string
**Returns:** dict with Auth Token constituents
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CloudGenix/sdk-python | cloudgenix/__init__.py | API.update_region_to_controller | def update_region_to_controller(self, region):
"""
Update the controller string with dynamic region info.
Controller string should end up as `<name[-env]>.<region>.cloudgenix.com`
**Parameters:**
- **region:** region string.
**Returns:** No return value, mutates the ... | python | def update_region_to_controller(self, region):
"""
Update the controller string with dynamic region info.
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CloudGenix/sdk-python | cloudgenix/__init__.py | API.parse_region | def parse_region(self, login_response):
"""
Return region from a successful login response.
**Parameters:**
- **login_response:** requests.Response from a successful login.
**Returns:** region name.
"""
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... | python | def parse_region(self, login_response):
"""
Return region from a successful login response.
**Parameters:**
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**Returns:** region name.
"""
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CloudGenix/sdk-python | cloudgenix/__init__.py | API._catch_nonjson_streamresponse | def _catch_nonjson_streamresponse(rawresponse):
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**Parameters:**
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**Returns:** Dictionary
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Validate a streamed response is JSON. Return a Python dictionary either way.
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CloudGenix/sdk-python | cloudgenix/__init__.py | API.url_decode | def url_decode(url):
"""
URL Decode function using REGEX
**Parameters:**
- **url:** URLENCODED text string
**Returns:** Non URLENCODED string
"""
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"""
URL Decode function using REGEX
**Parameters:**
- **url:** URLENCODED text string
**Returns:** Non URLENCODED string
"""
return re.compile('%([0-9a-fA-F]{2})', re.M).sub(lambda m: chr(int(m.group(1), 16)), url) | [
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deplicate/deplicate | duplicate/utils/fs/nt.py | blksize | def blksize(path):
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Get optimal file system buffer size (in bytes) for I/O calls.
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greyli/flask-avatars | flask_avatars/__init__.py | _Avatars.gravatar | def gravatar(hash, size=100, rating='g', default='identicon', include_extension=False, force_default=False):
"""Pass email hash, return Gravatar URL. You can get email hash like this::
import hashlib
avatar_hash = hashlib.md5(email.lower().encode('utf-8')).hexdigest()
Visit htt... | python | def gravatar(hash, size=100, rating='g', default='identicon', include_extension=False, force_default=False):
"""Pass email hash, return Gravatar URL. You can get email hash like this::
import hashlib
avatar_hash = hashlib.md5(email.lower().encode('utf-8')).hexdigest()
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greyli/flask-avatars | flask_avatars/__init__.py | _Avatars.social_media | def social_media(username, platform='twitter', size='medium'):
"""Return avatar URL at social media.
Visit https://avatars.io for more information.
:param username: The username of the social media.
:param platform: One of facebook, instagram, twitter, gravatar.
:param size: The... | python | def social_media(username, platform='twitter', size='medium'):
"""Return avatar URL at social media.
Visit https://avatars.io for more information.
:param username: The username of the social media.
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greyli/flask-avatars | flask_avatars/__init__.py | _Avatars.jcrop_css | def jcrop_css(css_url=None):
"""Load jcrop css file.
:param css_url: The custom CSS URL.
"""
if css_url is None:
if current_app.config['AVATARS_SERVE_LOCAL']:
css_url = url_for('avatars.static', filename='jcrop/css/jquery.Jcrop.min.css')
else:
... | python | def jcrop_css(css_url=None):
"""Load jcrop css file.
:param css_url: The custom CSS URL.
"""
if css_url is None:
if current_app.config['AVATARS_SERVE_LOCAL']:
css_url = url_for('avatars.static', filename='jcrop/css/jquery.Jcrop.min.css')
else:
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greyli/flask-avatars | flask_avatars/__init__.py | _Avatars.jcrop_js | def jcrop_js(js_url=None, with_jquery=True):
"""Load jcrop Javascript file.
:param js_url: The custom JavaScript URL.
:param with_jquery: Include jQuery or not, default to ``True``.
"""
serve_local = current_app.config['AVATARS_SERVE_LOCAL']
if js_url is None:
... | python | def jcrop_js(js_url=None, with_jquery=True):
"""Load jcrop Javascript file.
:param js_url: The custom JavaScript URL.
:param with_jquery: Include jQuery or not, default to ``True``.
"""
serve_local = current_app.config['AVATARS_SERVE_LOCAL']
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greyli/flask-avatars | flask_avatars/__init__.py | _Avatars.crop_box | def crop_box(endpoint=None, filename=None):
"""Create a crop box.
:param endpoint: The endpoint of view function that serve avatar image file.
:param filename: The filename of the image that need to be crop.
"""
crop_size = current_app.config['AVATARS_CROP_BASE_WIDTH']
... | python | def crop_box(endpoint=None, filename=None):
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:param endpoint: The endpoint of view function that serve avatar image file.
:param filename: The filename of the image that need to be crop.
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crop_size = current_app.config['AVATARS_CROP_BASE_WIDTH']
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greyli/flask-avatars | flask_avatars/__init__.py | _Avatars.preview_box | def preview_box(endpoint=None, filename=None):
"""Create a preview box.
:param endpoint: The endpoint of view function that serve avatar image file.
:param filename: The filename of the image that need to be crop.
"""
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greyli/flask-avatars | flask_avatars/__init__.py | _Avatars.init_jcrop | def init_jcrop(min_size=None):
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init_x = current_app.config['AVATARS_CROP_INIT_POS'][0]
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greyli/flask-avatars | flask_avatars/__init__.py | Avatars.resize_avatar | def resize_avatar(self, img, base_width):
"""Resize an avatar.
:param img: The image that needs to be resize.
:param base_width: The width of output image.
"""
w_percent = (base_width / float(img.size[0]))
h_size = int((float(img.size[1]) * float(w_percent)))
img... | python | def resize_avatar(self, img, base_width):
"""Resize an avatar.
:param img: The image that needs to be resize.
:param base_width: The width of output image.
"""
w_percent = (base_width / float(img.size[0]))
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greyli/flask-avatars | flask_avatars/__init__.py | Avatars.save_avatar | def save_avatar(self, image):
"""Save an avatar as raw image, return new filename.
:param image: The image that needs to be saved.
"""
path = current_app.config['AVATARS_SAVE_PATH']
filename = uuid4().hex + '_raw.png'
image.save(os.path.join(path, filename))
retu... | python | def save_avatar(self, image):
"""Save an avatar as raw image, return new filename.
:param image: The image that needs to be saved.
"""
path = current_app.config['AVATARS_SAVE_PATH']
filename = uuid4().hex + '_raw.png'
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greyli/flask-avatars | flask_avatars/__init__.py | Avatars.crop_avatar | def crop_avatar(self, filename, x, y, w, h):
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:param filename: The raw image's filename.
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:param y: The y-pos to start crop.
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greyli/flask-avatars | flask_avatars/identicon.py | Identicon.get_image | def get_image(self, string, width, height, pad=0):
"""
Byte representation of a PNG image
"""
hex_digest_byte_list = self._string_to_byte_list(string)
matrix = self._create_matrix(hex_digest_byte_list)
return self._create_image(matrix, width, height, pad) | python | def get_image(self, string, width, height, pad=0):
"""
Byte representation of a PNG image
"""
hex_digest_byte_list = self._string_to_byte_list(string)
matrix = self._create_matrix(hex_digest_byte_list)
return self._create_image(matrix, width, height, pad) | [
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greyli/flask-avatars | flask_avatars/identicon.py | Identicon._get_pastel_colour | def _get_pastel_colour(self, lighten=127):
"""
Create a pastel colour hex colour string
"""
def r():
return random.randint(0, 128) + lighten
return r(), r(), r() | python | def _get_pastel_colour(self, lighten=127):
"""
Create a pastel colour hex colour string
"""
def r():
return random.randint(0, 128) + lighten
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greyli/flask-avatars | flask_avatars/identicon.py | Identicon._luminance | def _luminance(self, rgb):
"""
Determine the liminanace of an RGB colour
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a = []
for v in rgb:
v = v / float(255)
if v < 0.03928:
result = v / 12.92
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result = math.pow(((v + 0.055) / 1.055), 2.4)
... | python | def _luminance(self, rgb):
"""
Determine the liminanace of an RGB colour
"""
a = []
for v in rgb:
v = v / float(255)
if v < 0.03928:
result = v / 12.92
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greyli/flask-avatars | flask_avatars/identicon.py | Identicon._string_to_byte_list | def _string_to_byte_list(self, data):
"""
Creates a hex digest of the input string given to create the image,
if it's not already hexadecimal
Returns:
Length 16 list of rgb value range integers
(each representing a byte of the hex digest)
"""
byte... | python | def _string_to_byte_list(self, data):
"""
Creates a hex digest of the input string given to create the image,
if it's not already hexadecimal
Returns:
Length 16 list of rgb value range integers
(each representing a byte of the hex digest)
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greyli/flask-avatars | flask_avatars/identicon.py | Identicon._bit_is_one | def _bit_is_one(self, n, hash_bytes):
"""
Check if the n (index) of hash_bytes is 1 or 0.
"""
scale = 16 # hexadecimal
if not hash_bytes[int(n / (scale / 2))] >> int(
(scale / 2) - ((n % (scale / 2)) + 1)) & 1 == 1:
return False
return True | python | def _bit_is_one(self, n, hash_bytes):
"""
Check if the n (index) of hash_bytes is 1 or 0.
"""
scale = 16 # hexadecimal
if not hash_bytes[int(n / (scale / 2))] >> int(
(scale / 2) - ((n % (scale / 2)) + 1)) & 1 == 1:
return False
return True | [
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greyli/flask-avatars | flask_avatars/identicon.py | Identicon._create_image | def _create_image(self, matrix, width, height, pad):
"""
Generates a PNG byte list
"""
image = Image.new("RGB", (width + (pad * 2),
height + (pad * 2)), self.bg_colour)
image_draw = ImageDraw.Draw(image)
# Calculate the block width and ... | python | def _create_image(self, matrix, width, height, pad):
"""
Generates a PNG byte list
"""
image = Image.new("RGB", (width + (pad * 2),
height + (pad * 2)), self.bg_colour)
image_draw = ImageDraw.Draw(image)
# Calculate the block width and ... | [
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greyli/flask-avatars | flask_avatars/identicon.py | Identicon._create_matrix | def _create_matrix(self, byte_list):
"""
This matrix decides which blocks should be filled fg/bg colour
True for fg_colour
False for bg_colour
hash_bytes - array of hash bytes values. RGB range values in each slot
Returns:
List representation of the matrix
... | python | def _create_matrix(self, byte_list):
"""
This matrix decides which blocks should be filled fg/bg colour
True for fg_colour
False for bg_colour
hash_bytes - array of hash bytes values. RGB range values in each slot
Returns:
List representation of the matrix
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hash_bytes - array of hash bytes values. RGB range values in each slot
Returns:
List representation of the matrix
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greyli/flask-avatars | flask_avatars/identicon.py | Identicon.generate | def generate(self, text):
"""Generate and save avatars, return a list of file name: [filename_s, filename_m, filename_l].
:param text: The text used to generate image.
"""
sizes = current_app.config['AVATARS_SIZE_TUPLE']
path = current_app.config['AVATARS_SAVE_PATH']
suf... | python | def generate(self, text):
"""Generate and save avatars, return a list of file name: [filename_s, filename_m, filename_l].
:param text: The text used to generate image.
"""
sizes = current_app.config['AVATARS_SIZE_TUPLE']
path = current_app.config['AVATARS_SAVE_PATH']
suf... | [
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rbuffat/pyepw | pyepw/epw.py | Location.read | def read(self, vals):
"""Read values.
Args:
vals (list): list of strings representing values
"""
i = 0
if len(vals[i]) == 0:
self.city = None
else:
self.city = vals[i]
i += 1
if len(vals[i]) == 0:
self.stat... | python | def read(self, vals):
"""Read values.
Args:
vals (list): list of strings representing values
"""
i = 0
if len(vals[i]) == 0:
self.city = None
else:
self.city = vals[i]
i += 1
if len(vals[i]) == 0:
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rbuffat/pyepw | pyepw/epw.py | Location.city | def city(self, value=None):
"""Corresponds to IDD Field `city`
Args:
value (str): value for IDD Field `city`
if `value` is None it will not be checked against the
specification and is assumed to be a missing value
Raises:
ValueError: if `... | python | def city(self, value=None):
"""Corresponds to IDD Field `city`
Args:
value (str): value for IDD Field `city`
if `value` is None it will not be checked against the
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value (str): value for IDD Field `city`
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