class FileIdAutoCompleteEntry(JsonObject):
_id = StringProperty(name='id')
dataType = StringProperty()
donorId = ListProperty(StringProperty)
fileBundleId = StringProperty()
fileName = ListProperty(StringProperty)
projectCode = ListProperty(StringProperty)
_type = StringProperty(name='type', default='file')
class PaginationObj(JsonObject):
count = IntegerProperty()
total = IntegerProperty()
size = IntegerProperty()
next = StringProperty()
previous = StringProperty()
sort = StringProperty()
order = StringProperty(choices=['asc', 'desc'])
class ShardMeta(JsonObject, LooslyEqualJsonObject):
id = IntegerProperty()
dbname = StringProperty()
host = StringProperty()
port = IntegerProperty()
def get_server_option_string(self):
return SHARD_OPTION_TEMPLATE.format(**self)
class PropertyDefinition(JsonObject):
# The case property name
name = StringProperty()
# The type of the value property:
# VALUE_TYPE_EXACT means `value` is the exact value to set to the case property referred to by `name`.
# VALUE_TYPE_CASE_PROPERTY means `value` is a case property to resolve first and then set to the case
# property referred to by `name`.
value_type = StringProperty()
# Meaning depends on value_type, see above
value = StringProperty()
class FileTypeSummary(AzulJsonObject):
format = StringProperty()
fileSource = ListProperty() # List could have string(s) and/or None
count = IntegerProperty()
totalSize = FloatProperty()
matrixCellCount = FloatProperty()
isIntermediate = BooleanProperty()
contentDescription = ListProperty(
) # List could have string(s) and/or None
@classmethod
def for_bucket(cls, bucket: JSON) -> 'FileTypeSummary':
self = cls()
self.count = bucket['doc_count']
self.totalSize = bucket['size_by_type']['value']
self.matrixCellCount = bucket['matrix_cell_count_by_type']['value']
self.format = bucket['key']
return self
@classmethod
def for_aggregate(cls, aggregate_file: JSON) -> 'FileTypeSummary':
self = cls()
self.count = aggregate_file['count']
self.fileSource = aggregate_file['file_source']
self.totalSize = aggregate_file['size']
self.matrixCellCount = aggregate_file['matrix_cell_count']
self.format = aggregate_file['file_format']
self.isIntermediate = aggregate_file['is_intermediate']
self.contentDescription = aggregate_file['content_description']
assert isinstance(self.format, str), type(str)
assert self.format
return self
class CountCaseFormsWithXmlns(JsonObject):
type = TypeProperty('count_case_forms_with_xmlns')
xmlns = StringProperty(required=True)
case_id_expression = DefaultProperty(required=True)
def configure(self, case_id_expression):
self._case_id_expression = case_id_expression
def __call__(self, item, context=None):
case_id = self._case_id_expression(item, context)
if not case_id:
return None
assert context.root_doc['domain']
return self._count_forms(case_id, context)
def _count_forms(self, case_id, context):
domain = context.root_doc['domain']
cache_key = (self.__class__.__name__, case_id, self.xmlns)
if context.get_cache_value(cache_key) is not None:
return context.get_cache_value(cache_key)
xforms = FormProcessorInterface(domain).get_case_forms(case_id)
count = len([
form for form in xforms
if form.xmlns == self.xmlns and form.domain == domain
])
context.set_cache_value(cache_key, count)
return count
class SchedulerModuleInfo(JsonObject):
# Set to True to enable setting the start date of any schedule instances
# based on the visit scheduler info details below
enabled = BooleanProperty(default=False)
# The app that contains the visit scheduler form being referenced
app_id = StringProperty()
# The unique_id of the visit scheduler form in the above app
form_unique_id = StringProperty()
# The visit number from which to pull the start date for any schedule
# instances; this should be the 0-based index in the FormSchedule.visits list
visit_number = IntegerProperty()
# VISIT_WINDOW_START - the start date used will be the first date in the window
# VISIT_WINDOW_END - the start date used will be the last date in the window
# VISIT_WINDOW_DUE_DATE - the start date used will be the due date of the visit
window_position = StringProperty(choices=[
VISIT_WINDOW_START, VISIT_WINDOW_END, VISIT_WINDOW_DUE_DATE
])
class SummaryRepresentation(JsonObject):
projectCount = IntegerProperty()
specimenCount = IntegerProperty()
speciesCount = IntegerProperty()
fileCount = IntegerProperty()
totalFileSize = FloatProperty()
donorCount = IntegerProperty()
labCount = IntegerProperty()
totalCellCount = FloatProperty()
organTypes = ListProperty(StringProperty(required=False))
fileTypeSummaries = ListProperty(FileTypeSummary)
cellCountSummaries = ListProperty(OrganCellCountSummary)
class ConcatenateStrings(JsonObject):
type = TypeProperty('concatenate_strings')
expressions = ListProperty(required=True)
separator = StringProperty(required=True)
def configure(self, expressions):
self._expression_fns = expressions
def __call__(self, item, context=None):
return self.separator.join([
six.text_type(expression(item, context))
for expression in self._expression_fns
if expression(item, context)
])
class ProcessInfo(JsonObject):
host = StringProperty() # not in the API
name = StringProperty()
group = StringProperty()
start = IntegerProperty()
stop = IntegerProperty()
now = IntegerProperty()
state = IntegerProperty()
statename = StringProperty()
spawnerr = StringProperty()
exitstatus = IntegerProperty()
stdout_logfile = StringProperty()
stderr_logfile = StringProperty()
pid = IntegerProperty()
class FirstCaseFormWithXmlns(JsonObject):
type = TypeProperty('first_case_form_with_xmlns')
xmlns = StringProperty(required=True)
case_id_expression = DefaultProperty(required=True)
reverse = BooleanProperty(default=False)
def configure(self, case_id_expression):
self._case_id_expression = case_id_expression
def __call__(self, item, context=None):
case_id = self._case_id_expression(item, context)
if not case_id:
return None
assert context.root_doc['domain']
return self._get_forms(case_id, context)
def _get_forms(self, case_id, context):
domain = context.root_doc['domain']
cache_key = (self.__class__.__name__, case_id, self.xmlns,
self.reverse)
if context.get_cache_value(cache_key) is not None:
return context.get_cache_value(cache_key)
xforms = FormProcessorInterface(domain).get_case_forms(case_id)
xforms = sorted([
form for form in xforms
if form.xmlns == self.xmlns and form.domain == domain
],
key=lambda x: x.received_on)
if not xforms:
form = None
else:
index = -1 if self.reverse else 0
form = xforms[index].to_json()
context.set_cache_value(cache_key, form)
return form
class FileTypeSummary(JsonObject):
fileType = StringProperty()
count = IntegerProperty()
totalSize = IntegerProperty()
@classmethod
def for_bucket(cls, bucket: JSON) -> 'FileTypeSummary':
self = cls()
self.count = bucket['doc_count']
self.totalSize = int(
bucket['size_by_type']
['value']) # Casting to integer since ES returns a double
self.fileType = bucket['key']
return self
@classmethod
def for_aggregate(cls, aggregate_file: JSON) -> 'FileTypeSummary':
self = cls()
self.count = aggregate_file['count']
self.totalSize = aggregate_file['size']
self.fileType = aggregate_file['file_format']
assert isinstance(self.fileType, str)
assert len(self.fileType)
return self
class Config(JsonObject):
env_with_datadog_auth = StringProperty(required=True)
catchall_alert_channel = StringProperty(required=True)
env_notifications = DictProperty(required=True)
class FacetObj(JsonObject):
terms = ListProperty(AbstractTermObj)
total = IntegerProperty()
_type = StringProperty(name='type')
class ValueAndUnitObj(JsonObject):
value = StringProperty()
unit = StringProperty()
class TermObj(AbstractTermObj):
term = StringProperty()
def DataTypeProperty(**kwargs):
"""
Shortcut for valid data types.
"""
return StringProperty(choices=DATA_TYPE_CHOICES, **kwargs)