Module phc.easy.summary.options.item_counts
Expand source code
from enum import Enum
from typing import Union
from phc.easy.summary.options.clinical_counts import (
SummaryClinicalCountsOptions,
)
class SummaryClinicalType(str, Enum):
OBSERVATION = "observation"
CONDITION = "condition"
MEDICATION = "medication"
PROCEDURE = "procedure"
MEDIA = "media"
DEMOGRAPHIC = "demographic"
# NOTE: Patient is not included because it's just a count
# PATIENT = "patient"
@classmethod
def has_value(cls, value):
return any(value == item.value for item in cls)
class SummaryOmicsType(str, Enum):
TEST = "test"
SEQUENCE = "sequence"
GENE_VARIANT = "gene-variant"
COPY_NUMBER_STATUS = "copynumber-status"
CLINVAR_SIG = "clinvar-significance"
ONCOPRINT = "oncoprint"
@classmethod
def has_value(cls, value):
return any(value == item.value for item in cls)
class SummaryItemCountsOptions(SummaryClinicalCountsOptions):
summary: Union[SummaryClinicalType, SummaryOmicsType]
Classes
class SummaryClinicalType (value, names=None, *, module=None, qualname=None, type=None, start=1)
-
An enumeration.
Expand source code
class SummaryClinicalType(str, Enum): OBSERVATION = "observation" CONDITION = "condition" MEDICATION = "medication" PROCEDURE = "procedure" MEDIA = "media" DEMOGRAPHIC = "demographic" # NOTE: Patient is not included because it's just a count # PATIENT = "patient" @classmethod def has_value(cls, value): return any(value == item.value for item in cls)
Ancestors
- builtins.str
- enum.Enum
Class variables
var CONDITION
var DEMOGRAPHIC
var MEDIA
var MEDICATION
var OBSERVATION
var PROCEDURE
Static methods
def has_value(value)
-
Expand source code
@classmethod def has_value(cls, value): return any(value == item.value for item in cls)
class SummaryItemCountsOptions (**data: Any)
-
Create a new model by parsing and validating input data from keyword arguments.
Raises ValidationError if the input data cannot be parsed to form a valid model.
Expand source code
class SummaryItemCountsOptions(SummaryClinicalCountsOptions): summary: Union[SummaryClinicalType, SummaryOmicsType]
Ancestors
- SummaryClinicalCountsOptions
- PagingApiOptions
- pydantic.main.BaseModel
- pydantic.utils.Representation
Class variables
var summary : Union[SummaryOmicsType, SummaryClinicalType]
Methods
def dict(self)
-
Inherited from:
SummaryClinicalCountsOptions
.dict
Generate a dictionary representation of the model, optionally specifying which fields to include or exclude.
class SummaryOmicsType (value, names=None, *, module=None, qualname=None, type=None, start=1)
-
An enumeration.
Expand source code
class SummaryOmicsType(str, Enum): TEST = "test" SEQUENCE = "sequence" GENE_VARIANT = "gene-variant" COPY_NUMBER_STATUS = "copynumber-status" CLINVAR_SIG = "clinvar-significance" ONCOPRINT = "oncoprint" @classmethod def has_value(cls, value): return any(value == item.value for item in cls)
Ancestors
- builtins.str
- enum.Enum
Class variables
var CLINVAR_SIG
var COPY_NUMBER_STATUS
var GENE_VARIANT
var ONCOPRINT
var SEQUENCE
var TEST
Static methods
def has_value(value)
-
Expand source code
@classmethod def has_value(cls, value): return any(value == item.value for item in cls)