lara-django-organisms-grpc 0.2.90__py3-none-any.whl
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- lara_django_organisms_grpc/__init__.py +2 -0
- lara_django_organisms_grpc/lara_django_organisms_data_model.py +2796 -0
- lara_django_organisms_grpc/lara_django_organisms_interface.py +3484 -0
- lara_django_organisms_grpc/lara_django_organisms_interface1.py +2704 -0
- lara_django_organisms_grpc/lara_django_organisms_interface_2025-01-29_162736.py +3511 -0
- lara_django_organisms_grpc/lara_django_organisms_interface_2025-01-31_084557.py +3465 -0
- lara_django_organisms_grpc/lara_django_organisms_interface_2025-03-02_225945.py +3454 -0
- lara_django_organisms_grpc/lara_django_organisms_interface_latest.py +3313 -0
- lara_django_organisms_grpc/organism_relation_resolver.py +182 -0
- lara_django_organisms_grpc/v1/lara_django_organisms_pb2.py +381 -0
- lara_django_organisms_grpc/v1/lara_django_organisms_pb2.pyi +1904 -0
- lara_django_organisms_grpc/v1/lara_django_organisms_pb2_grpc.py +6376 -0
- lara_django_organisms_grpc-0.2.90.dist-info/METADATA +69 -0
- lara_django_organisms_grpc-0.2.90.dist-info/RECORD +15 -0
- lara_django_organisms_grpc-0.2.90.dist-info/WHEEL +4 -0
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from __future__ import annotations
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import re
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import sys
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from datetime import (
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date,
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datetime,
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time
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)
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from decimal import Decimal
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from enum import Enum
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from typing import (
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Any,
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ClassVar,
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Dict,
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List,
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Literal,
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Optional,
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Union
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)
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from pydantic import (
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BaseModel,
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ConfigDict,
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Field,
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RootModel,
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field_validator
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)
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metamodel_version = "None"
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version = "None"
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class ConfiguredBaseModel(BaseModel):
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model_config = ConfigDict(
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validate_assignment = True,
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validate_default = True,
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extra = "forbid",
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arbitrary_types_allowed = True,
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use_enum_values = True,
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strict = False,
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)
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pass
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class LinkMLMeta(RootModel):
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root: Dict[str, Any] = {}
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model_config = ConfigDict(frozen=True)
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def __getattr__(self, key:str):
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return getattr(self.root, key)
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def __getitem__(self, key:str):
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return self.root[key]
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def __setitem__(self, key:str, value):
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self.root[key] = value
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def __contains__(self, key:str) -> bool:
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return key in self.root
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linkml_meta = LinkMLMeta({'default_prefix': 'lara',
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'default_range': 'string',
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'id': 'https://w3id.org/lara/lara_django_organisms',
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'imports': ['linkml:types'],
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'name': 'lara_django_organisms',
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'prefixes': {'lara': {'prefix_prefix': 'lara',
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'prefix_reference': 'http://w3id.org/lara/'},
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'linkml': {'prefix_prefix': 'linkml',
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'prefix_reference': 'https://w3id.org/linkml/'},
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'oso': {'prefix_prefix': 'oso',
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'prefix_reference': 'http://w3id.org/oso/'}},
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'source_file': 'lara_django_organisms_schema.yaml'} )
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class Namespace(ConfiguredBaseModel):
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"""
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<class 'lara_django_base.models.Namespace'>
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"""
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linkml_meta: ClassVar[LinkMLMeta] = LinkMLMeta({'from_schema': 'https://w3id.org/lara/lara_django_organisms'})
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pass
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class MediaType(ConfiguredBaseModel):
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"""
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<class 'lara_django_base.models.MediaType'>
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"""
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linkml_meta: ClassVar[LinkMLMeta] = LinkMLMeta({'from_schema': 'https://w3id.org/lara/lara_django_organisms'})
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pass
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class PhysicalUnit(ConfiguredBaseModel):
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"""
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<class 'lara_django_base.models.PhysicalUnit'>
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"""
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linkml_meta: ClassVar[LinkMLMeta] = LinkMLMeta({'from_schema': 'https://w3id.org/lara/lara_django_organisms'})
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pass
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class DataType(ConfiguredBaseModel):
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"""
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<class 'lara_django_base.models.DataType'>
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"""
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linkml_meta: ClassVar[LinkMLMeta] = LinkMLMeta({'from_schema': 'https://w3id.org/lara/lara_django_organisms'})
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pass
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class Entity(ConfiguredBaseModel):
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"""
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<class 'lara_django_people.models.Entity'>
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"""
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linkml_meta: ClassVar[LinkMLMeta] = LinkMLMeta({'from_schema': 'https://w3id.org/lara/lara_django_organisms'})
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pass
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class Group(ConfiguredBaseModel):
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"""
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<class 'lara_django_people.models.Group'>
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"""
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linkml_meta: ClassVar[LinkMLMeta] = LinkMLMeta({'from_schema': 'https://w3id.org/lara/lara_django_organisms'})
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pass
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class Tag(ConfiguredBaseModel):
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"""
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<class 'lara_django_base.models.Tag'>
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"""
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linkml_meta: ClassVar[LinkMLMeta] = LinkMLMeta({'from_schema': 'https://w3id.org/lara/lara_django_organisms'})
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pass
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class ExtraData(ConfiguredBaseModel):
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"""
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\" This class can be used to extend data, by extra information,
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e.g. more telephone numbers, customer numbers, ...
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\"
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"""
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linkml_meta: ClassVar[LinkMLMeta] = LinkMLMeta({'class_uri': 'lara:lara_django_organisms/extradata',
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'from_schema': 'https://w3id.org/lara/lara_django_organisms'})
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extradata_id: Optional[str] = Field(None, description="""ExtraData - primary key (UUID)""", json_schema_extra = { "linkml_meta": {'alias': 'extradata_id',
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'domain_of': ['ExtraData'],
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'slot_uri': 'lara:extradata/extradata_id'} })
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data_type: Optional[str] = Field(None, json_schema_extra = { "linkml_meta": {'alias': 'data_type',
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'domain_of': ['ExtraData'],
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'slot_uri': 'lara:extradata/data_type'} })
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namespace: str = Field(..., description="""namespace of data""", json_schema_extra = { "linkml_meta": {'alias': 'namespace',
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'domain_of': ['ExtraData', 'OrganismsSubset'],
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'slot_uri': 'lara:extradata/namespace'} })
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name_display: Optional[str] = Field(None, description="""Human readable display name or title of extra data""", json_schema_extra = { "linkml_meta": {'alias': 'name_display',
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'domain_of': ['ExtraData',
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'HabitatParameter',
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'Habitat',
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'Trait',
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'Domain',
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'Regnum',
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'Phylum',
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'Classis',
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'Ordo',
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'Familia',
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'Genus',
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'Species',
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'Subspecies',
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'Variant',
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'Cultivar',
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'Organism',
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'OrganismsSubset'],
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'slot_uri': 'lara:extradata/name_display'} })
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name: Optional[str] = Field(None, description="""name of extra data""", json_schema_extra = { "linkml_meta": {'alias': 'name',
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'domain_of': ['ExtraData',
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'HabitatClass',
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'HabitatParameter',
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'Habitat',
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'Trait',
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'Domain',
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'Regnum',
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'Phylum',
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'Classis',
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'Ordo',
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'Familia',
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'Genus',
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'Species',
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'Subspecies',
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'Variant',
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'Cultivar',
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'Organism',
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'OrganismsSubset'],
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'slot_uri': 'lara:extradata/name'} })
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name_full: Optional[str] = Field(None, description="""full name of extra data""", json_schema_extra = { "linkml_meta": {'alias': 'name_full',
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'domain_of': ['ExtraData'],
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'slot_uri': 'lara:extradata/name_full'} })
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version: Optional[str] = Field(None, description="""version of extra data""", json_schema_extra = { "linkml_meta": {'alias': 'version',
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'domain_of': ['ExtraData'],
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'slot_uri': 'lara:extradata/version'} })
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hash_sha256: Optional[str] = Field(None, description="""SHA256 hash of all data (JSON and XML)""", json_schema_extra = { "linkml_meta": {'alias': 'hash_sha256',
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'domain_of': ['ExtraData'],
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'slot_uri': 'lara:extradata/hash_sha256'} })
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data_json: Optional[str] = Field(None, description="""generic JSON field""", json_schema_extra = { "linkml_meta": {'alias': 'data_json',
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'domain_of': ['ExtraData'],
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'slot_uri': 'lara:extradata/data_json'} })
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media_type: Optional[str] = Field(None, description="""IANA media type of extra data file""", json_schema_extra = { "linkml_meta": {'alias': 'media_type',
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'domain_of': ['ExtraData'],
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'slot_uri': 'lara:extradata/media_type'} })
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iri: Optional[str] = Field(None, description="""International Resource Identifier - IRI: is used for semantic representation """, json_schema_extra = { "linkml_meta": {'alias': 'iri',
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'domain_of': ['ExtraData',
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'HabitatClass',
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'HabitatParameter',
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'Habitat',
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'Trait',
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'Domain',
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'Regnum',
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'Phylum',
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'Classis',
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'Ordo',
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'Familia',
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'Genus',
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'Species',
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'Subspecies',
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'Variant',
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'Cultivar',
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'Organism'],
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'slot_uri': 'lara:extradata/iri'} })
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url: Optional[str] = Field(None, description="""Universal Resource Locator - this can be used to link the data to external locations""", json_schema_extra = { "linkml_meta": {'alias': 'url', 'domain_of': ['ExtraData'], 'slot_uri': 'lara:extradata/url'} })
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datetime_created: Optional[str] = Field(None, description="""date and time when data was created""", json_schema_extra = { "linkml_meta": {'alias': 'datetime_created',
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'domain_of': ['ExtraData'],
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'slot_uri': 'lara:extradata/datetime_created'} })
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datetime_last_modified: Optional[str] = Field(None, description="""date and time when data was last modified""", json_schema_extra = { "linkml_meta": {'alias': 'datetime_last_modified',
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'domain_of': ['ExtraData',
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'HabitatParameter',
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'Habitat',
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'Trait',
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'Domain',
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'Regnum',
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'Phylum',
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'Classis',
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'Ordo',
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'Familia',
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'Genus',
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'Species',
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'Subspecies',
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'Variant',
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'Cultivar',
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'Organism',
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'OrganismsSubset'],
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'slot_uri': 'lara:extradata/datetime_last_modified'} })
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description: Optional[str] = Field(None, description="""description of extra data""", json_schema_extra = { "linkml_meta": {'alias': 'description',
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'domain_of': ['ExtraData',
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'HabitatClass',
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'HabitatParameter',
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'Habitat',
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'Trait',
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'Domain',
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'Regnum',
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'Phylum',
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'Classis',
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'Ordo',
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'Familia',
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'Genus',
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'Species',
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'Subspecies',
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'Variant',
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'Cultivar',
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'Organism',
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'OrganismsSubset'],
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'slot_uri': 'lara:extradata/description'} })
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file: Optional[str] = Field(None, description="""rel. path/filename""", json_schema_extra = { "linkml_meta": {'alias': 'file', 'domain_of': ['ExtraData'], 'slot_uri': 'lara:extradata/file'} })
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class HabitatClass(ConfiguredBaseModel):
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"""
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\" classes of habitats, like maritime, terrestrial, shore, .. \"
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"""
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linkml_meta: ClassVar[LinkMLMeta] = LinkMLMeta({'class_uri': 'lara:lara_django_organisms/habitatclass',
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'from_schema': 'https://w3id.org/lara/lara_django_organisms'})
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habitatclass_id: Optional[str] = Field(None, description="""HabitatClass - primary key (UUID)""", json_schema_extra = { "linkml_meta": {'alias': 'habitatclass_id',
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'domain_of': ['HabitatClass'],
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'slot_uri': 'lara:habitatclass/habitatclass_id'} })
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name: str = Field(..., description="""maritime, terrestrial, shore""", json_schema_extra = { "linkml_meta": {'alias': 'name',
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'domain_of': ['ExtraData',
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'HabitatClass',
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293
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+
'HabitatParameter',
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+
'Habitat',
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295
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+
'Trait',
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296
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+
'Domain',
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297
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'Regnum',
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'Phylum',
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+
'Classis',
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300
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+
'Ordo',
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301
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+
'Familia',
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302
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+
'Genus',
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+
'Species',
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304
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+
'Subspecies',
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305
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+
'Variant',
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306
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+
'Cultivar',
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307
|
+
'Organism',
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308
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+
'OrganismsSubset'],
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+
'slot_uri': 'lara:habitatclass/name'} })
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+
iri: Optional[str] = Field(None, description="""International Resource Identifier - IRI: is used for semantic representation """, json_schema_extra = { "linkml_meta": {'alias': 'iri',
|
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311
|
+
'domain_of': ['ExtraData',
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312
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+
'HabitatClass',
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313
|
+
'HabitatParameter',
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314
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+
'Habitat',
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315
|
+
'Trait',
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316
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+
'Domain',
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317
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+
'Regnum',
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318
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+
'Phylum',
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319
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+
'Classis',
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320
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+
'Ordo',
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321
|
+
'Familia',
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322
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+
'Genus',
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323
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+
'Species',
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324
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+
'Subspecies',
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+
'Variant',
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326
|
+
'Cultivar',
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|
+
'Organism'],
|
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328
|
+
'slot_uri': 'lara:habitatclass/iri'} })
|
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329
|
+
description: Optional[str] = Field(None, description="""description of the habitat class""", json_schema_extra = { "linkml_meta": {'alias': 'description',
|
|
330
|
+
'domain_of': ['ExtraData',
|
|
331
|
+
'HabitatClass',
|
|
332
|
+
'HabitatParameter',
|
|
333
|
+
'Habitat',
|
|
334
|
+
'Trait',
|
|
335
|
+
'Domain',
|
|
336
|
+
'Regnum',
|
|
337
|
+
'Phylum',
|
|
338
|
+
'Classis',
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|
339
|
+
'Ordo',
|
|
340
|
+
'Familia',
|
|
341
|
+
'Genus',
|
|
342
|
+
'Species',
|
|
343
|
+
'Subspecies',
|
|
344
|
+
'Variant',
|
|
345
|
+
'Cultivar',
|
|
346
|
+
'Organism',
|
|
347
|
+
'OrganismsSubset'],
|
|
348
|
+
'slot_uri': 'lara:habitatclass/description'} })
|
|
349
|
+
|
|
350
|
+
|
|
351
|
+
class HabitatParameter(ConfiguredBaseModel):
|
|
352
|
+
"""
|
|
353
|
+
\" Class level Habitat Parameters can be used to model all kinds of general habitat parameters
|
|
354
|
+
that are common for all organisms of a certain class.
|
|
355
|
+
Habitat parameters of an individual organism should be captured in the
|
|
356
|
+
organism store.
|
|
357
|
+
Examples of these parameters could be moisture, pH, nutrients (?), geological,
|
|
358
|
+
geo_width_min, geo_width_max
|
|
359
|
+
temperature_average
|
|
360
|
+
temperature_min
|
|
361
|
+
temperature_max
|
|
362
|
+
oxygen_concentration_min
|
|
363
|
+
oxygen_concentration_max
|
|
364
|
+
oxygen_concentration_average
|
|
365
|
+
humidity_average
|
|
366
|
+
pH_average
|
|
367
|
+
|
|
368
|
+
# salt concentration
|
|
369
|
+
moisture_air_min
|
|
370
|
+
moisture_air_max
|
|
371
|
+
moisture_air_average
|
|
372
|
+
light_during_day_min
|
|
373
|
+
light_during_day_max
|
|
374
|
+
light_during_day_average
|
|
375
|
+
|
|
376
|
+
height_min
|
|
377
|
+
height_max
|
|
378
|
+
:TODO: parts should be moved to ontology
|
|
379
|
+
\"
|
|
380
|
+
"""
|
|
381
|
+
linkml_meta: ClassVar[LinkMLMeta] = LinkMLMeta({'class_uri': 'lara:lara_django_organisms/habitatparameter',
|
|
382
|
+
'from_schema': 'https://w3id.org/lara/lara_django_organisms'})
|
|
383
|
+
|
|
384
|
+
habitatparameter_id: Optional[str] = Field(None, description="""HabitatParameter - primary key (UUID)""", json_schema_extra = { "linkml_meta": {'alias': 'habitatparameter_id',
|
|
385
|
+
'domain_of': ['HabitatParameter'],
|
|
386
|
+
'slot_uri': 'lara:habitatparameter/habitatparameter_id'} })
|
|
387
|
+
name_display: str = Field(..., description="""human readable display name of the habitat parameter, can contain spaces""", json_schema_extra = { "linkml_meta": {'alias': 'name_display',
|
|
388
|
+
'domain_of': ['ExtraData',
|
|
389
|
+
'HabitatParameter',
|
|
390
|
+
'Habitat',
|
|
391
|
+
'Trait',
|
|
392
|
+
'Domain',
|
|
393
|
+
'Regnum',
|
|
394
|
+
'Phylum',
|
|
395
|
+
'Classis',
|
|
396
|
+
'Ordo',
|
|
397
|
+
'Familia',
|
|
398
|
+
'Genus',
|
|
399
|
+
'Species',
|
|
400
|
+
'Subspecies',
|
|
401
|
+
'Variant',
|
|
402
|
+
'Cultivar',
|
|
403
|
+
'Organism',
|
|
404
|
+
'OrganismsSubset'],
|
|
405
|
+
'slot_uri': 'lara:habitatparameter/name_display'} })
|
|
406
|
+
name: str = Field(..., description="""name of the habitat parameter, e.g. temperature, moisture, pH, ...""", json_schema_extra = { "linkml_meta": {'alias': 'name',
|
|
407
|
+
'domain_of': ['ExtraData',
|
|
408
|
+
'HabitatClass',
|
|
409
|
+
'HabitatParameter',
|
|
410
|
+
'Habitat',
|
|
411
|
+
'Trait',
|
|
412
|
+
'Domain',
|
|
413
|
+
'Regnum',
|
|
414
|
+
'Phylum',
|
|
415
|
+
'Classis',
|
|
416
|
+
'Ordo',
|
|
417
|
+
'Familia',
|
|
418
|
+
'Genus',
|
|
419
|
+
'Species',
|
|
420
|
+
'Subspecies',
|
|
421
|
+
'Variant',
|
|
422
|
+
'Cultivar',
|
|
423
|
+
'Organism',
|
|
424
|
+
'OrganismsSubset'],
|
|
425
|
+
'slot_uri': 'lara:habitatparameter/name'} })
|
|
426
|
+
iri: Optional[str] = Field(None, description="""International Resource Identifier - IRI: is used for semantic representation """, json_schema_extra = { "linkml_meta": {'alias': 'iri',
|
|
427
|
+
'domain_of': ['ExtraData',
|
|
428
|
+
'HabitatClass',
|
|
429
|
+
'HabitatParameter',
|
|
430
|
+
'Habitat',
|
|
431
|
+
'Trait',
|
|
432
|
+
'Domain',
|
|
433
|
+
'Regnum',
|
|
434
|
+
'Phylum',
|
|
435
|
+
'Classis',
|
|
436
|
+
'Ordo',
|
|
437
|
+
'Familia',
|
|
438
|
+
'Genus',
|
|
439
|
+
'Species',
|
|
440
|
+
'Subspecies',
|
|
441
|
+
'Variant',
|
|
442
|
+
'Cultivar',
|
|
443
|
+
'Organism'],
|
|
444
|
+
'slot_uri': 'lara:habitatparameter/iri'} })
|
|
445
|
+
value_range: Optional[str] = Field(None, description="""range of values for this parameter, like min, max, average, ...""", json_schema_extra = { "linkml_meta": {'alias': 'value_range',
|
|
446
|
+
'domain_of': ['HabitatParameter', 'Trait'],
|
|
447
|
+
'slot_uri': 'lara:habitatparameter/value_range'} })
|
|
448
|
+
unit: Optional[str] = Field(None, description="""physical unit of the parameter, e.g. K, mol/L, ...""", json_schema_extra = { "linkml_meta": {'alias': 'unit',
|
|
449
|
+
'domain_of': ['HabitatParameter', 'Trait'],
|
|
450
|
+
'slot_uri': 'lara:habitatparameter/unit'} })
|
|
451
|
+
description: Optional[str] = Field(None, description="""description of the habitat parameter""", json_schema_extra = { "linkml_meta": {'alias': 'description',
|
|
452
|
+
'domain_of': ['ExtraData',
|
|
453
|
+
'HabitatClass',
|
|
454
|
+
'HabitatParameter',
|
|
455
|
+
'Habitat',
|
|
456
|
+
'Trait',
|
|
457
|
+
'Domain',
|
|
458
|
+
'Regnum',
|
|
459
|
+
'Phylum',
|
|
460
|
+
'Classis',
|
|
461
|
+
'Ordo',
|
|
462
|
+
'Familia',
|
|
463
|
+
'Genus',
|
|
464
|
+
'Species',
|
|
465
|
+
'Subspecies',
|
|
466
|
+
'Variant',
|
|
467
|
+
'Cultivar',
|
|
468
|
+
'Organism',
|
|
469
|
+
'OrganismsSubset'],
|
|
470
|
+
'slot_uri': 'lara:habitatparameter/description'} })
|
|
471
|
+
datetime_last_modified: Optional[str] = Field(None, description="""date and time when habitat parameter data was last modified""", json_schema_extra = { "linkml_meta": {'alias': 'datetime_last_modified',
|
|
472
|
+
'domain_of': ['ExtraData',
|
|
473
|
+
'HabitatParameter',
|
|
474
|
+
'Habitat',
|
|
475
|
+
'Trait',
|
|
476
|
+
'Domain',
|
|
477
|
+
'Regnum',
|
|
478
|
+
'Phylum',
|
|
479
|
+
'Classis',
|
|
480
|
+
'Ordo',
|
|
481
|
+
'Familia',
|
|
482
|
+
'Genus',
|
|
483
|
+
'Species',
|
|
484
|
+
'Subspecies',
|
|
485
|
+
'Variant',
|
|
486
|
+
'Cultivar',
|
|
487
|
+
'Organism',
|
|
488
|
+
'OrganismsSubset'],
|
|
489
|
+
'slot_uri': 'lara:habitatparameter/datetime_last_modified'} })
|
|
490
|
+
data_extra: Optional[List[str]] = Field(None, description="""e.g. more information about this particular parameter ...""", json_schema_extra = { "linkml_meta": {'alias': 'data_extra',
|
|
491
|
+
'domain_of': ['HabitatParameter', 'Organism'],
|
|
492
|
+
'slot_uri': 'lara:habitatparameter/data_extra'} })
|
|
493
|
+
|
|
494
|
+
|
|
495
|
+
class Habitat(ConfiguredBaseModel):
|
|
496
|
+
"""
|
|
497
|
+
\" Information about the living conditions of an organism, e.g. temperature, moisture, pH, ... \"
|
|
498
|
+
"""
|
|
499
|
+
linkml_meta: ClassVar[LinkMLMeta] = LinkMLMeta({'class_uri': 'lara:lara_django_organisms/habitat',
|
|
500
|
+
'from_schema': 'https://w3id.org/lara/lara_django_organisms'})
|
|
501
|
+
|
|
502
|
+
habitat_id: Optional[str] = Field(None, description="""Habitat - primary key (UUID)""", json_schema_extra = { "linkml_meta": {'alias': 'habitat_id',
|
|
503
|
+
'domain_of': ['Habitat'],
|
|
504
|
+
'slot_uri': 'lara:habitat/habitat_id'} })
|
|
505
|
+
name_display: str = Field(..., description="""human readable display name of the habitat, can contain spaces""", json_schema_extra = { "linkml_meta": {'alias': 'name_display',
|
|
506
|
+
'domain_of': ['ExtraData',
|
|
507
|
+
'HabitatParameter',
|
|
508
|
+
'Habitat',
|
|
509
|
+
'Trait',
|
|
510
|
+
'Domain',
|
|
511
|
+
'Regnum',
|
|
512
|
+
'Phylum',
|
|
513
|
+
'Classis',
|
|
514
|
+
'Ordo',
|
|
515
|
+
'Familia',
|
|
516
|
+
'Genus',
|
|
517
|
+
'Species',
|
|
518
|
+
'Subspecies',
|
|
519
|
+
'Variant',
|
|
520
|
+
'Cultivar',
|
|
521
|
+
'Organism',
|
|
522
|
+
'OrganismsSubset'],
|
|
523
|
+
'slot_uri': 'lara:habitat/name_display'} })
|
|
524
|
+
name: Optional[str] = Field(None, description="""habitat name with namespaces, like sea.shore, sea.deepsee, land.vulcan""", json_schema_extra = { "linkml_meta": {'alias': 'name',
|
|
525
|
+
'domain_of': ['ExtraData',
|
|
526
|
+
'HabitatClass',
|
|
527
|
+
'HabitatParameter',
|
|
528
|
+
'Habitat',
|
|
529
|
+
'Trait',
|
|
530
|
+
'Domain',
|
|
531
|
+
'Regnum',
|
|
532
|
+
'Phylum',
|
|
533
|
+
'Classis',
|
|
534
|
+
'Ordo',
|
|
535
|
+
'Familia',
|
|
536
|
+
'Genus',
|
|
537
|
+
'Species',
|
|
538
|
+
'Subspecies',
|
|
539
|
+
'Variant',
|
|
540
|
+
'Cultivar',
|
|
541
|
+
'Organism',
|
|
542
|
+
'OrganismsSubset'],
|
|
543
|
+
'slot_uri': 'lara:habitat/name'} })
|
|
544
|
+
iri: Optional[str] = Field(None, description="""International Resource Identifier - IRI: is used for semantic representation """, json_schema_extra = { "linkml_meta": {'alias': 'iri',
|
|
545
|
+
'domain_of': ['ExtraData',
|
|
546
|
+
'HabitatClass',
|
|
547
|
+
'HabitatParameter',
|
|
548
|
+
'Habitat',
|
|
549
|
+
'Trait',
|
|
550
|
+
'Domain',
|
|
551
|
+
'Regnum',
|
|
552
|
+
'Phylum',
|
|
553
|
+
'Classis',
|
|
554
|
+
'Ordo',
|
|
555
|
+
'Familia',
|
|
556
|
+
'Genus',
|
|
557
|
+
'Species',
|
|
558
|
+
'Subspecies',
|
|
559
|
+
'Variant',
|
|
560
|
+
'Cultivar',
|
|
561
|
+
'Organism'],
|
|
562
|
+
'slot_uri': 'lara:habitat/iri'} })
|
|
563
|
+
habitat_class: Optional[str] = Field(None, description="""class of the habitat, like maritime, terrestrial, shore, ...""", json_schema_extra = { "linkml_meta": {'alias': 'habitat_class',
|
|
564
|
+
'domain_of': ['Habitat'],
|
|
565
|
+
'slot_uri': 'lara:habitat/habitat_class'} })
|
|
566
|
+
description: Optional[str] = Field(None, description="""description of the habitat""", json_schema_extra = { "linkml_meta": {'alias': 'description',
|
|
567
|
+
'domain_of': ['ExtraData',
|
|
568
|
+
'HabitatClass',
|
|
569
|
+
'HabitatParameter',
|
|
570
|
+
'Habitat',
|
|
571
|
+
'Trait',
|
|
572
|
+
'Domain',
|
|
573
|
+
'Regnum',
|
|
574
|
+
'Phylum',
|
|
575
|
+
'Classis',
|
|
576
|
+
'Ordo',
|
|
577
|
+
'Familia',
|
|
578
|
+
'Genus',
|
|
579
|
+
'Species',
|
|
580
|
+
'Subspecies',
|
|
581
|
+
'Variant',
|
|
582
|
+
'Cultivar',
|
|
583
|
+
'Organism',
|
|
584
|
+
'OrganismsSubset'],
|
|
585
|
+
'slot_uri': 'lara:habitat/description'} })
|
|
586
|
+
datetime_last_modified: Optional[str] = Field(None, description="""date and time when habitat data was last modified""", json_schema_extra = { "linkml_meta": {'alias': 'datetime_last_modified',
|
|
587
|
+
'domain_of': ['ExtraData',
|
|
588
|
+
'HabitatParameter',
|
|
589
|
+
'Habitat',
|
|
590
|
+
'Trait',
|
|
591
|
+
'Domain',
|
|
592
|
+
'Regnum',
|
|
593
|
+
'Phylum',
|
|
594
|
+
'Classis',
|
|
595
|
+
'Ordo',
|
|
596
|
+
'Familia',
|
|
597
|
+
'Genus',
|
|
598
|
+
'Species',
|
|
599
|
+
'Subspecies',
|
|
600
|
+
'Variant',
|
|
601
|
+
'Cultivar',
|
|
602
|
+
'Organism',
|
|
603
|
+
'OrganismsSubset'],
|
|
604
|
+
'slot_uri': 'lara:habitat/datetime_last_modified'} })
|
|
605
|
+
parameters: Optional[List[str]] = Field(None, description="""e.g. more parameters, like nutrients, ...""", json_schema_extra = { "linkml_meta": {'alias': 'parameters',
|
|
606
|
+
'domain_of': ['Habitat'],
|
|
607
|
+
'slot_uri': 'lara:habitat/parameters'} })
|
|
608
|
+
|
|
609
|
+
|
|
610
|
+
class Trait(ConfiguredBaseModel):
|
|
611
|
+
"""
|
|
612
|
+
\" Phenotypical, phenomenological or genetic traits / features / attributes of the general organism,
|
|
613
|
+
like branched, round, oval, .. (GRAM) staining, genetic fingerprint sequence,
|
|
614
|
+
or genetic features, like antibiotic resistance,
|
|
615
|
+
morphology
|
|
616
|
+
size
|
|
617
|
+
shape
|
|
618
|
+
motility
|
|
619
|
+
spore
|
|
620
|
+
flagella
|
|
621
|
+
capsule
|
|
622
|
+
|
|
623
|
+
growth optimum temp, pH, salt, sugar, ...
|
|
624
|
+
doubling rate
|
|
625
|
+
metabolites
|
|
626
|
+
nutrients
|
|
627
|
+
metabolic characteristics
|
|
628
|
+
pathogenicity
|
|
629
|
+
membrane potential
|
|
630
|
+
|
|
631
|
+
legal status / origin / patent
|
|
632
|
+
part of the organism
|
|
633
|
+
culture conditions
|
|
634
|
+
\"
|
|
635
|
+
"""
|
|
636
|
+
linkml_meta: ClassVar[LinkMLMeta] = LinkMLMeta({'class_uri': 'lara:lara_django_organisms/trait',
|
|
637
|
+
'from_schema': 'https://w3id.org/lara/lara_django_organisms'})
|
|
638
|
+
|
|
639
|
+
trait_id: Optional[str] = Field(None, description="""Trait - primary key (UUID)""", json_schema_extra = { "linkml_meta": {'alias': 'trait_id', 'domain_of': ['Trait'], 'slot_uri': 'lara:trait/trait_id'} })
|
|
640
|
+
name_display: str = Field(..., description="""human readable display name of the trait, can contain spaces""", json_schema_extra = { "linkml_meta": {'alias': 'name_display',
|
|
641
|
+
'domain_of': ['ExtraData',
|
|
642
|
+
'HabitatParameter',
|
|
643
|
+
'Habitat',
|
|
644
|
+
'Trait',
|
|
645
|
+
'Domain',
|
|
646
|
+
'Regnum',
|
|
647
|
+
'Phylum',
|
|
648
|
+
'Classis',
|
|
649
|
+
'Ordo',
|
|
650
|
+
'Familia',
|
|
651
|
+
'Genus',
|
|
652
|
+
'Species',
|
|
653
|
+
'Subspecies',
|
|
654
|
+
'Variant',
|
|
655
|
+
'Cultivar',
|
|
656
|
+
'Organism',
|
|
657
|
+
'OrganismsSubset'],
|
|
658
|
+
'slot_uri': 'lara:trait/name_display'} })
|
|
659
|
+
name: str = Field(..., description="""Name of the trait / feature attribute of the organisms, like branched, round, oval, .. staining, genetic fingerprint sequence """, json_schema_extra = { "linkml_meta": {'alias': 'name',
|
|
660
|
+
'domain_of': ['ExtraData',
|
|
661
|
+
'HabitatClass',
|
|
662
|
+
'HabitatParameter',
|
|
663
|
+
'Habitat',
|
|
664
|
+
'Trait',
|
|
665
|
+
'Domain',
|
|
666
|
+
'Regnum',
|
|
667
|
+
'Phylum',
|
|
668
|
+
'Classis',
|
|
669
|
+
'Ordo',
|
|
670
|
+
'Familia',
|
|
671
|
+
'Genus',
|
|
672
|
+
'Species',
|
|
673
|
+
'Subspecies',
|
|
674
|
+
'Variant',
|
|
675
|
+
'Cultivar',
|
|
676
|
+
'Organism',
|
|
677
|
+
'OrganismsSubset'],
|
|
678
|
+
'slot_uri': 'lara:trait/name'} })
|
|
679
|
+
value_range: Optional[str] = Field(None, description="""range of values for this trait, like min, max, average, ...""", json_schema_extra = { "linkml_meta": {'alias': 'value_range',
|
|
680
|
+
'domain_of': ['HabitatParameter', 'Trait'],
|
|
681
|
+
'slot_uri': 'lara:trait/value_range'} })
|
|
682
|
+
characteristics: Optional[str] = Field(None, description="""characteristics of this trait""", json_schema_extra = { "linkml_meta": {'alias': 'characteristics',
|
|
683
|
+
'domain_of': ['Trait',
|
|
684
|
+
'Domain',
|
|
685
|
+
'Regnum',
|
|
686
|
+
'Phylum',
|
|
687
|
+
'Classis',
|
|
688
|
+
'Ordo',
|
|
689
|
+
'Familia',
|
|
690
|
+
'Genus',
|
|
691
|
+
'Species',
|
|
692
|
+
'Subspecies',
|
|
693
|
+
'Variant',
|
|
694
|
+
'Cultivar',
|
|
695
|
+
'Organism'],
|
|
696
|
+
'slot_uri': 'lara:trait/characteristics'} })
|
|
697
|
+
unit: Optional[str] = Field(None, description="""physical unit of the parameter, e.g. m, m^2, V, ...""", json_schema_extra = { "linkml_meta": {'alias': 'unit',
|
|
698
|
+
'domain_of': ['HabitatParameter', 'Trait'],
|
|
699
|
+
'slot_uri': 'lara:trait/unit'} })
|
|
700
|
+
iri: Optional[str] = Field(None, description="""International Resource Identifier - IRI: is used for semantic representation """, json_schema_extra = { "linkml_meta": {'alias': 'iri',
|
|
701
|
+
'domain_of': ['ExtraData',
|
|
702
|
+
'HabitatClass',
|
|
703
|
+
'HabitatParameter',
|
|
704
|
+
'Habitat',
|
|
705
|
+
'Trait',
|
|
706
|
+
'Domain',
|
|
707
|
+
'Regnum',
|
|
708
|
+
'Phylum',
|
|
709
|
+
'Classis',
|
|
710
|
+
'Ordo',
|
|
711
|
+
'Familia',
|
|
712
|
+
'Genus',
|
|
713
|
+
'Species',
|
|
714
|
+
'Subspecies',
|
|
715
|
+
'Variant',
|
|
716
|
+
'Cultivar',
|
|
717
|
+
'Organism'],
|
|
718
|
+
'slot_uri': 'lara:trait/iri'} })
|
|
719
|
+
description: Optional[str] = Field(None, description="""description of the feature class""", json_schema_extra = { "linkml_meta": {'alias': 'description',
|
|
720
|
+
'domain_of': ['ExtraData',
|
|
721
|
+
'HabitatClass',
|
|
722
|
+
'HabitatParameter',
|
|
723
|
+
'Habitat',
|
|
724
|
+
'Trait',
|
|
725
|
+
'Domain',
|
|
726
|
+
'Regnum',
|
|
727
|
+
'Phylum',
|
|
728
|
+
'Classis',
|
|
729
|
+
'Ordo',
|
|
730
|
+
'Familia',
|
|
731
|
+
'Genus',
|
|
732
|
+
'Species',
|
|
733
|
+
'Subspecies',
|
|
734
|
+
'Variant',
|
|
735
|
+
'Cultivar',
|
|
736
|
+
'Organism',
|
|
737
|
+
'OrganismsSubset'],
|
|
738
|
+
'slot_uri': 'lara:trait/description'} })
|
|
739
|
+
datetime_last_modified: Optional[str] = Field(None, description="""date and time when trait data was last modified""", json_schema_extra = { "linkml_meta": {'alias': 'datetime_last_modified',
|
|
740
|
+
'domain_of': ['ExtraData',
|
|
741
|
+
'HabitatParameter',
|
|
742
|
+
'Habitat',
|
|
743
|
+
'Trait',
|
|
744
|
+
'Domain',
|
|
745
|
+
'Regnum',
|
|
746
|
+
'Phylum',
|
|
747
|
+
'Classis',
|
|
748
|
+
'Ordo',
|
|
749
|
+
'Familia',
|
|
750
|
+
'Genus',
|
|
751
|
+
'Species',
|
|
752
|
+
'Subspecies',
|
|
753
|
+
'Variant',
|
|
754
|
+
'Cultivar',
|
|
755
|
+
'Organism',
|
|
756
|
+
'OrganismsSubset'],
|
|
757
|
+
'slot_uri': 'lara:trait/datetime_last_modified'} })
|
|
758
|
+
|
|
759
|
+
|
|
760
|
+
class Domain(ConfiguredBaseModel):
|
|
761
|
+
"""
|
|
762
|
+
\" taxonomic domain / super kingdom / empire: Archaea, Bacteria, and Eukarya \"
|
|
763
|
+
"""
|
|
764
|
+
linkml_meta: ClassVar[LinkMLMeta] = LinkMLMeta({'class_uri': 'lara:lara_django_organisms/domain',
|
|
765
|
+
'from_schema': 'https://w3id.org/lara/lara_django_organisms'})
|
|
766
|
+
|
|
767
|
+
domain_id: Optional[str] = Field(None, description="""Domain - primary key (UUID)""", json_schema_extra = { "linkml_meta": {'alias': 'domain_id',
|
|
768
|
+
'domain_of': ['Domain'],
|
|
769
|
+
'slot_uri': 'lara:domain/domain_id'} })
|
|
770
|
+
name_display: str = Field(..., description="""human readable display name of the domain, can contain spaces""", json_schema_extra = { "linkml_meta": {'alias': 'name_display',
|
|
771
|
+
'domain_of': ['ExtraData',
|
|
772
|
+
'HabitatParameter',
|
|
773
|
+
'Habitat',
|
|
774
|
+
'Trait',
|
|
775
|
+
'Domain',
|
|
776
|
+
'Regnum',
|
|
777
|
+
'Phylum',
|
|
778
|
+
'Classis',
|
|
779
|
+
'Ordo',
|
|
780
|
+
'Familia',
|
|
781
|
+
'Genus',
|
|
782
|
+
'Species',
|
|
783
|
+
'Subspecies',
|
|
784
|
+
'Variant',
|
|
785
|
+
'Cultivar',
|
|
786
|
+
'Organism',
|
|
787
|
+
'OrganismsSubset'],
|
|
788
|
+
'slot_uri': 'lara:domain/name_display'} })
|
|
789
|
+
name: Optional[str] = Field(None, description="""domain name: Archaea, Bacteria, and Eukarya""", json_schema_extra = { "linkml_meta": {'alias': 'name',
|
|
790
|
+
'domain_of': ['ExtraData',
|
|
791
|
+
'HabitatClass',
|
|
792
|
+
'HabitatParameter',
|
|
793
|
+
'Habitat',
|
|
794
|
+
'Trait',
|
|
795
|
+
'Domain',
|
|
796
|
+
'Regnum',
|
|
797
|
+
'Phylum',
|
|
798
|
+
'Classis',
|
|
799
|
+
'Ordo',
|
|
800
|
+
'Familia',
|
|
801
|
+
'Genus',
|
|
802
|
+
'Species',
|
|
803
|
+
'Subspecies',
|
|
804
|
+
'Variant',
|
|
805
|
+
'Cultivar',
|
|
806
|
+
'Organism',
|
|
807
|
+
'OrganismsSubset'],
|
|
808
|
+
'slot_uri': 'lara:domain/name'} })
|
|
809
|
+
iri: Optional[str] = Field(None, description="""International Resource Identifier - IRI: is used for semantic representation """, json_schema_extra = { "linkml_meta": {'alias': 'iri',
|
|
810
|
+
'domain_of': ['ExtraData',
|
|
811
|
+
'HabitatClass',
|
|
812
|
+
'HabitatParameter',
|
|
813
|
+
'Habitat',
|
|
814
|
+
'Trait',
|
|
815
|
+
'Domain',
|
|
816
|
+
'Regnum',
|
|
817
|
+
'Phylum',
|
|
818
|
+
'Classis',
|
|
819
|
+
'Ordo',
|
|
820
|
+
'Familia',
|
|
821
|
+
'Genus',
|
|
822
|
+
'Species',
|
|
823
|
+
'Subspecies',
|
|
824
|
+
'Variant',
|
|
825
|
+
'Cultivar',
|
|
826
|
+
'Organism'],
|
|
827
|
+
'slot_uri': 'lara:domain/iri'} })
|
|
828
|
+
characteristics: Optional[str] = Field(None, description="""General characteristics of Domain. Use 'traits' for specific traits.""", json_schema_extra = { "linkml_meta": {'alias': 'characteristics',
|
|
829
|
+
'domain_of': ['Trait',
|
|
830
|
+
'Domain',
|
|
831
|
+
'Regnum',
|
|
832
|
+
'Phylum',
|
|
833
|
+
'Classis',
|
|
834
|
+
'Ordo',
|
|
835
|
+
'Familia',
|
|
836
|
+
'Genus',
|
|
837
|
+
'Species',
|
|
838
|
+
'Subspecies',
|
|
839
|
+
'Variant',
|
|
840
|
+
'Cultivar',
|
|
841
|
+
'Organism'],
|
|
842
|
+
'slot_uri': 'lara:domain/characteristics'} })
|
|
843
|
+
description: Optional[str] = Field(None, description="""description of domain""", json_schema_extra = { "linkml_meta": {'alias': 'description',
|
|
844
|
+
'domain_of': ['ExtraData',
|
|
845
|
+
'HabitatClass',
|
|
846
|
+
'HabitatParameter',
|
|
847
|
+
'Habitat',
|
|
848
|
+
'Trait',
|
|
849
|
+
'Domain',
|
|
850
|
+
'Regnum',
|
|
851
|
+
'Phylum',
|
|
852
|
+
'Classis',
|
|
853
|
+
'Ordo',
|
|
854
|
+
'Familia',
|
|
855
|
+
'Genus',
|
|
856
|
+
'Species',
|
|
857
|
+
'Subspecies',
|
|
858
|
+
'Variant',
|
|
859
|
+
'Cultivar',
|
|
860
|
+
'Organism',
|
|
861
|
+
'OrganismsSubset'],
|
|
862
|
+
'slot_uri': 'lara:domain/description'} })
|
|
863
|
+
datetime_last_modified: Optional[str] = Field(None, description="""date and time when habitat parameter data was last modified""", json_schema_extra = { "linkml_meta": {'alias': 'datetime_last_modified',
|
|
864
|
+
'domain_of': ['ExtraData',
|
|
865
|
+
'HabitatParameter',
|
|
866
|
+
'Habitat',
|
|
867
|
+
'Trait',
|
|
868
|
+
'Domain',
|
|
869
|
+
'Regnum',
|
|
870
|
+
'Phylum',
|
|
871
|
+
'Classis',
|
|
872
|
+
'Ordo',
|
|
873
|
+
'Familia',
|
|
874
|
+
'Genus',
|
|
875
|
+
'Species',
|
|
876
|
+
'Subspecies',
|
|
877
|
+
'Variant',
|
|
878
|
+
'Cultivar',
|
|
879
|
+
'Organism',
|
|
880
|
+
'OrganismsSubset'],
|
|
881
|
+
'slot_uri': 'lara:domain/datetime_last_modified'} })
|
|
882
|
+
traits: Optional[List[str]] = Field(None, description="""General domain's traits / features / attributes""", json_schema_extra = { "linkml_meta": {'alias': 'traits',
|
|
883
|
+
'domain_of': ['Domain',
|
|
884
|
+
'Regnum',
|
|
885
|
+
'Phylum',
|
|
886
|
+
'Classis',
|
|
887
|
+
'Ordo',
|
|
888
|
+
'Familia',
|
|
889
|
+
'Genus',
|
|
890
|
+
'Species',
|
|
891
|
+
'Subspecies',
|
|
892
|
+
'Variant',
|
|
893
|
+
'Cultivar',
|
|
894
|
+
'Organism',
|
|
895
|
+
'Container'],
|
|
896
|
+
'slot_uri': 'lara:domain/traits'} })
|
|
897
|
+
|
|
898
|
+
|
|
899
|
+
class Regnum(ConfiguredBaseModel):
|
|
900
|
+
"""
|
|
901
|
+
\" taxonomic Regnum (Kingdom): Animalia, Plantae, Fungi, Protista,
|
|
902
|
+
Archaea/Archaebacteria, and Bacteria/Eubacteria
|
|
903
|
+
might be deprecated
|
|
904
|
+
\"
|
|
905
|
+
"""
|
|
906
|
+
linkml_meta: ClassVar[LinkMLMeta] = LinkMLMeta({'class_uri': 'lara:lara_django_organisms/regnum',
|
|
907
|
+
'from_schema': 'https://w3id.org/lara/lara_django_organisms'})
|
|
908
|
+
|
|
909
|
+
regnum_id: Optional[str] = Field(None, description="""Regnum - primary key (UUID)""", json_schema_extra = { "linkml_meta": {'alias': 'regnum_id',
|
|
910
|
+
'domain_of': ['Regnum'],
|
|
911
|
+
'slot_uri': 'lara:regnum/regnum_id'} })
|
|
912
|
+
name_display: str = Field(..., description="""human readable display name of the regnum, can contain spaces""", json_schema_extra = { "linkml_meta": {'alias': 'name_display',
|
|
913
|
+
'domain_of': ['ExtraData',
|
|
914
|
+
'HabitatParameter',
|
|
915
|
+
'Habitat',
|
|
916
|
+
'Trait',
|
|
917
|
+
'Domain',
|
|
918
|
+
'Regnum',
|
|
919
|
+
'Phylum',
|
|
920
|
+
'Classis',
|
|
921
|
+
'Ordo',
|
|
922
|
+
'Familia',
|
|
923
|
+
'Genus',
|
|
924
|
+
'Species',
|
|
925
|
+
'Subspecies',
|
|
926
|
+
'Variant',
|
|
927
|
+
'Cultivar',
|
|
928
|
+
'Organism',
|
|
929
|
+
'OrganismsSubset'],
|
|
930
|
+
'slot_uri': 'lara:regnum/name_display'} })
|
|
931
|
+
name: Optional[str] = Field(None, description="""Regnum name, like Plantae, Fungi""", json_schema_extra = { "linkml_meta": {'alias': 'name',
|
|
932
|
+
'domain_of': ['ExtraData',
|
|
933
|
+
'HabitatClass',
|
|
934
|
+
'HabitatParameter',
|
|
935
|
+
'Habitat',
|
|
936
|
+
'Trait',
|
|
937
|
+
'Domain',
|
|
938
|
+
'Regnum',
|
|
939
|
+
'Phylum',
|
|
940
|
+
'Classis',
|
|
941
|
+
'Ordo',
|
|
942
|
+
'Familia',
|
|
943
|
+
'Genus',
|
|
944
|
+
'Species',
|
|
945
|
+
'Subspecies',
|
|
946
|
+
'Variant',
|
|
947
|
+
'Cultivar',
|
|
948
|
+
'Organism',
|
|
949
|
+
'OrganismsSubset'],
|
|
950
|
+
'slot_uri': 'lara:regnum/name'} })
|
|
951
|
+
iri: Optional[str] = Field(None, description="""International Resource Identifier - IRI: is used for semantic representation """, json_schema_extra = { "linkml_meta": {'alias': 'iri',
|
|
952
|
+
'domain_of': ['ExtraData',
|
|
953
|
+
'HabitatClass',
|
|
954
|
+
'HabitatParameter',
|
|
955
|
+
'Habitat',
|
|
956
|
+
'Trait',
|
|
957
|
+
'Domain',
|
|
958
|
+
'Regnum',
|
|
959
|
+
'Phylum',
|
|
960
|
+
'Classis',
|
|
961
|
+
'Ordo',
|
|
962
|
+
'Familia',
|
|
963
|
+
'Genus',
|
|
964
|
+
'Species',
|
|
965
|
+
'Subspecies',
|
|
966
|
+
'Variant',
|
|
967
|
+
'Cultivar',
|
|
968
|
+
'Organism'],
|
|
969
|
+
'slot_uri': 'lara:regnum/iri'} })
|
|
970
|
+
characteristics: Optional[str] = Field(None, description="""General characteristics of Regnum, use 'traits' for specific traits.""", json_schema_extra = { "linkml_meta": {'alias': 'characteristics',
|
|
971
|
+
'domain_of': ['Trait',
|
|
972
|
+
'Domain',
|
|
973
|
+
'Regnum',
|
|
974
|
+
'Phylum',
|
|
975
|
+
'Classis',
|
|
976
|
+
'Ordo',
|
|
977
|
+
'Familia',
|
|
978
|
+
'Genus',
|
|
979
|
+
'Species',
|
|
980
|
+
'Subspecies',
|
|
981
|
+
'Variant',
|
|
982
|
+
'Cultivar',
|
|
983
|
+
'Organism'],
|
|
984
|
+
'slot_uri': 'lara:regnum/characteristics'} })
|
|
985
|
+
description: Optional[str] = Field(None, description="""description of Regnum""", json_schema_extra = { "linkml_meta": {'alias': 'description',
|
|
986
|
+
'domain_of': ['ExtraData',
|
|
987
|
+
'HabitatClass',
|
|
988
|
+
'HabitatParameter',
|
|
989
|
+
'Habitat',
|
|
990
|
+
'Trait',
|
|
991
|
+
'Domain',
|
|
992
|
+
'Regnum',
|
|
993
|
+
'Phylum',
|
|
994
|
+
'Classis',
|
|
995
|
+
'Ordo',
|
|
996
|
+
'Familia',
|
|
997
|
+
'Genus',
|
|
998
|
+
'Species',
|
|
999
|
+
'Subspecies',
|
|
1000
|
+
'Variant',
|
|
1001
|
+
'Cultivar',
|
|
1002
|
+
'Organism',
|
|
1003
|
+
'OrganismsSubset'],
|
|
1004
|
+
'slot_uri': 'lara:regnum/description'} })
|
|
1005
|
+
datetime_last_modified: Optional[str] = Field(None, description="""date and time when habitat parameter data was last modified""", json_schema_extra = { "linkml_meta": {'alias': 'datetime_last_modified',
|
|
1006
|
+
'domain_of': ['ExtraData',
|
|
1007
|
+
'HabitatParameter',
|
|
1008
|
+
'Habitat',
|
|
1009
|
+
'Trait',
|
|
1010
|
+
'Domain',
|
|
1011
|
+
'Regnum',
|
|
1012
|
+
'Phylum',
|
|
1013
|
+
'Classis',
|
|
1014
|
+
'Ordo',
|
|
1015
|
+
'Familia',
|
|
1016
|
+
'Genus',
|
|
1017
|
+
'Species',
|
|
1018
|
+
'Subspecies',
|
|
1019
|
+
'Variant',
|
|
1020
|
+
'Cultivar',
|
|
1021
|
+
'Organism',
|
|
1022
|
+
'OrganismsSubset'],
|
|
1023
|
+
'slot_uri': 'lara:regnum/datetime_last_modified'} })
|
|
1024
|
+
traits: Optional[List[str]] = Field(None, description="""General regnum's traits / features / attributes""", json_schema_extra = { "linkml_meta": {'alias': 'traits',
|
|
1025
|
+
'domain_of': ['Domain',
|
|
1026
|
+
'Regnum',
|
|
1027
|
+
'Phylum',
|
|
1028
|
+
'Classis',
|
|
1029
|
+
'Ordo',
|
|
1030
|
+
'Familia',
|
|
1031
|
+
'Genus',
|
|
1032
|
+
'Species',
|
|
1033
|
+
'Subspecies',
|
|
1034
|
+
'Variant',
|
|
1035
|
+
'Cultivar',
|
|
1036
|
+
'Organism',
|
|
1037
|
+
'Container'],
|
|
1038
|
+
'slot_uri': 'lara:regnum/traits'} })
|
|
1039
|
+
|
|
1040
|
+
|
|
1041
|
+
class Phylum(ConfiguredBaseModel):
|
|
1042
|
+
"""
|
|
1043
|
+
\" taxonomic Phylum / Devisio / Division \"
|
|
1044
|
+
"""
|
|
1045
|
+
linkml_meta: ClassVar[LinkMLMeta] = LinkMLMeta({'class_uri': 'lara:lara_django_organisms/phylum',
|
|
1046
|
+
'from_schema': 'https://w3id.org/lara/lara_django_organisms'})
|
|
1047
|
+
|
|
1048
|
+
phylum_id: Optional[str] = Field(None, description="""Phylum - primary key (UUID)""", json_schema_extra = { "linkml_meta": {'alias': 'phylum_id',
|
|
1049
|
+
'domain_of': ['Phylum'],
|
|
1050
|
+
'slot_uri': 'lara:phylum/phylum_id'} })
|
|
1051
|
+
name_display: str = Field(..., description="""human readable display name of the phylum, can contain spaces""", json_schema_extra = { "linkml_meta": {'alias': 'name_display',
|
|
1052
|
+
'domain_of': ['ExtraData',
|
|
1053
|
+
'HabitatParameter',
|
|
1054
|
+
'Habitat',
|
|
1055
|
+
'Trait',
|
|
1056
|
+
'Domain',
|
|
1057
|
+
'Regnum',
|
|
1058
|
+
'Phylum',
|
|
1059
|
+
'Classis',
|
|
1060
|
+
'Ordo',
|
|
1061
|
+
'Familia',
|
|
1062
|
+
'Genus',
|
|
1063
|
+
'Species',
|
|
1064
|
+
'Subspecies',
|
|
1065
|
+
'Variant',
|
|
1066
|
+
'Cultivar',
|
|
1067
|
+
'Organism',
|
|
1068
|
+
'OrganismsSubset'],
|
|
1069
|
+
'slot_uri': 'lara:phylum/name_display'} })
|
|
1070
|
+
name: Optional[str] = Field(None, description="""phylum name, like """, json_schema_extra = { "linkml_meta": {'alias': 'name',
|
|
1071
|
+
'domain_of': ['ExtraData',
|
|
1072
|
+
'HabitatClass',
|
|
1073
|
+
'HabitatParameter',
|
|
1074
|
+
'Habitat',
|
|
1075
|
+
'Trait',
|
|
1076
|
+
'Domain',
|
|
1077
|
+
'Regnum',
|
|
1078
|
+
'Phylum',
|
|
1079
|
+
'Classis',
|
|
1080
|
+
'Ordo',
|
|
1081
|
+
'Familia',
|
|
1082
|
+
'Genus',
|
|
1083
|
+
'Species',
|
|
1084
|
+
'Subspecies',
|
|
1085
|
+
'Variant',
|
|
1086
|
+
'Cultivar',
|
|
1087
|
+
'Organism',
|
|
1088
|
+
'OrganismsSubset'],
|
|
1089
|
+
'slot_uri': 'lara:phylum/name'} })
|
|
1090
|
+
name_common: Optional[str] = Field(None, description="""common phylum name, like """, json_schema_extra = { "linkml_meta": {'alias': 'name_common',
|
|
1091
|
+
'domain_of': ['Phylum',
|
|
1092
|
+
'Classis',
|
|
1093
|
+
'Ordo',
|
|
1094
|
+
'Familia',
|
|
1095
|
+
'Genus',
|
|
1096
|
+
'Species',
|
|
1097
|
+
'Subspecies',
|
|
1098
|
+
'Variant',
|
|
1099
|
+
'Cultivar',
|
|
1100
|
+
'Organism'],
|
|
1101
|
+
'slot_uri': 'lara:phylum/name_common'} })
|
|
1102
|
+
characteristics: Optional[str] = Field(None, description="""Generic characteristics of phylum. Use 'traits' for specific traits.""", json_schema_extra = { "linkml_meta": {'alias': 'characteristics',
|
|
1103
|
+
'domain_of': ['Trait',
|
|
1104
|
+
'Domain',
|
|
1105
|
+
'Regnum',
|
|
1106
|
+
'Phylum',
|
|
1107
|
+
'Classis',
|
|
1108
|
+
'Ordo',
|
|
1109
|
+
'Familia',
|
|
1110
|
+
'Genus',
|
|
1111
|
+
'Species',
|
|
1112
|
+
'Subspecies',
|
|
1113
|
+
'Variant',
|
|
1114
|
+
'Cultivar',
|
|
1115
|
+
'Organism'],
|
|
1116
|
+
'slot_uri': 'lara:phylum/characteristics'} })
|
|
1117
|
+
iri: Optional[str] = Field(None, description="""International Resource Identifier - IRI: is used for semantic representation """, json_schema_extra = { "linkml_meta": {'alias': 'iri',
|
|
1118
|
+
'domain_of': ['ExtraData',
|
|
1119
|
+
'HabitatClass',
|
|
1120
|
+
'HabitatParameter',
|
|
1121
|
+
'Habitat',
|
|
1122
|
+
'Trait',
|
|
1123
|
+
'Domain',
|
|
1124
|
+
'Regnum',
|
|
1125
|
+
'Phylum',
|
|
1126
|
+
'Classis',
|
|
1127
|
+
'Ordo',
|
|
1128
|
+
'Familia',
|
|
1129
|
+
'Genus',
|
|
1130
|
+
'Species',
|
|
1131
|
+
'Subspecies',
|
|
1132
|
+
'Variant',
|
|
1133
|
+
'Cultivar',
|
|
1134
|
+
'Organism'],
|
|
1135
|
+
'slot_uri': 'lara:phylum/iri'} })
|
|
1136
|
+
description: Optional[str] = Field(None, description="""description of phylum""", json_schema_extra = { "linkml_meta": {'alias': 'description',
|
|
1137
|
+
'domain_of': ['ExtraData',
|
|
1138
|
+
'HabitatClass',
|
|
1139
|
+
'HabitatParameter',
|
|
1140
|
+
'Habitat',
|
|
1141
|
+
'Trait',
|
|
1142
|
+
'Domain',
|
|
1143
|
+
'Regnum',
|
|
1144
|
+
'Phylum',
|
|
1145
|
+
'Classis',
|
|
1146
|
+
'Ordo',
|
|
1147
|
+
'Familia',
|
|
1148
|
+
'Genus',
|
|
1149
|
+
'Species',
|
|
1150
|
+
'Subspecies',
|
|
1151
|
+
'Variant',
|
|
1152
|
+
'Cultivar',
|
|
1153
|
+
'Organism',
|
|
1154
|
+
'OrganismsSubset'],
|
|
1155
|
+
'slot_uri': 'lara:phylum/description'} })
|
|
1156
|
+
datetime_last_modified: Optional[str] = Field(None, description="""date and time when habitat parameter data was last modified""", json_schema_extra = { "linkml_meta": {'alias': 'datetime_last_modified',
|
|
1157
|
+
'domain_of': ['ExtraData',
|
|
1158
|
+
'HabitatParameter',
|
|
1159
|
+
'Habitat',
|
|
1160
|
+
'Trait',
|
|
1161
|
+
'Domain',
|
|
1162
|
+
'Regnum',
|
|
1163
|
+
'Phylum',
|
|
1164
|
+
'Classis',
|
|
1165
|
+
'Ordo',
|
|
1166
|
+
'Familia',
|
|
1167
|
+
'Genus',
|
|
1168
|
+
'Species',
|
|
1169
|
+
'Subspecies',
|
|
1170
|
+
'Variant',
|
|
1171
|
+
'Cultivar',
|
|
1172
|
+
'Organism',
|
|
1173
|
+
'OrganismsSubset'],
|
|
1174
|
+
'slot_uri': 'lara:phylum/datetime_last_modified'} })
|
|
1175
|
+
traits: Optional[List[str]] = Field(None, description="""General phylum's traits / features / attributes""", json_schema_extra = { "linkml_meta": {'alias': 'traits',
|
|
1176
|
+
'domain_of': ['Domain',
|
|
1177
|
+
'Regnum',
|
|
1178
|
+
'Phylum',
|
|
1179
|
+
'Classis',
|
|
1180
|
+
'Ordo',
|
|
1181
|
+
'Familia',
|
|
1182
|
+
'Genus',
|
|
1183
|
+
'Species',
|
|
1184
|
+
'Subspecies',
|
|
1185
|
+
'Variant',
|
|
1186
|
+
'Cultivar',
|
|
1187
|
+
'Organism',
|
|
1188
|
+
'Container'],
|
|
1189
|
+
'slot_uri': 'lara:phylum/traits'} })
|
|
1190
|
+
|
|
1191
|
+
|
|
1192
|
+
class Classis(ConfiguredBaseModel):
|
|
1193
|
+
"""
|
|
1194
|
+
\" taxonomic Classis / Class \"
|
|
1195
|
+
"""
|
|
1196
|
+
linkml_meta: ClassVar[LinkMLMeta] = LinkMLMeta({'class_uri': 'lara:lara_django_organisms/classis',
|
|
1197
|
+
'from_schema': 'https://w3id.org/lara/lara_django_organisms'})
|
|
1198
|
+
|
|
1199
|
+
classis_id: Optional[str] = Field(None, description="""Classis - primary key (UUID)""", json_schema_extra = { "linkml_meta": {'alias': 'classis_id',
|
|
1200
|
+
'domain_of': ['Classis'],
|
|
1201
|
+
'slot_uri': 'lara:classis/classis_id'} })
|
|
1202
|
+
name_display: str = Field(..., description="""human readable display name of the classis, can contain spaces""", json_schema_extra = { "linkml_meta": {'alias': 'name_display',
|
|
1203
|
+
'domain_of': ['ExtraData',
|
|
1204
|
+
'HabitatParameter',
|
|
1205
|
+
'Habitat',
|
|
1206
|
+
'Trait',
|
|
1207
|
+
'Domain',
|
|
1208
|
+
'Regnum',
|
|
1209
|
+
'Phylum',
|
|
1210
|
+
'Classis',
|
|
1211
|
+
'Ordo',
|
|
1212
|
+
'Familia',
|
|
1213
|
+
'Genus',
|
|
1214
|
+
'Species',
|
|
1215
|
+
'Subspecies',
|
|
1216
|
+
'Variant',
|
|
1217
|
+
'Cultivar',
|
|
1218
|
+
'Organism',
|
|
1219
|
+
'OrganismsSubset'],
|
|
1220
|
+
'slot_uri': 'lara:classis/name_display'} })
|
|
1221
|
+
name: Optional[str] = Field(None, description="""classis name, like """, json_schema_extra = { "linkml_meta": {'alias': 'name',
|
|
1222
|
+
'domain_of': ['ExtraData',
|
|
1223
|
+
'HabitatClass',
|
|
1224
|
+
'HabitatParameter',
|
|
1225
|
+
'Habitat',
|
|
1226
|
+
'Trait',
|
|
1227
|
+
'Domain',
|
|
1228
|
+
'Regnum',
|
|
1229
|
+
'Phylum',
|
|
1230
|
+
'Classis',
|
|
1231
|
+
'Ordo',
|
|
1232
|
+
'Familia',
|
|
1233
|
+
'Genus',
|
|
1234
|
+
'Species',
|
|
1235
|
+
'Subspecies',
|
|
1236
|
+
'Variant',
|
|
1237
|
+
'Cultivar',
|
|
1238
|
+
'Organism',
|
|
1239
|
+
'OrganismsSubset'],
|
|
1240
|
+
'slot_uri': 'lara:classis/name'} })
|
|
1241
|
+
name_common: Optional[str] = Field(None, description="""common classis name, like """, json_schema_extra = { "linkml_meta": {'alias': 'name_common',
|
|
1242
|
+
'domain_of': ['Phylum',
|
|
1243
|
+
'Classis',
|
|
1244
|
+
'Ordo',
|
|
1245
|
+
'Familia',
|
|
1246
|
+
'Genus',
|
|
1247
|
+
'Species',
|
|
1248
|
+
'Subspecies',
|
|
1249
|
+
'Variant',
|
|
1250
|
+
'Cultivar',
|
|
1251
|
+
'Organism'],
|
|
1252
|
+
'slot_uri': 'lara:classis/name_common'} })
|
|
1253
|
+
characteristics: Optional[str] = Field(None, description="""generic characteristics of this classis, use 'traits' for specific traits.""", json_schema_extra = { "linkml_meta": {'alias': 'characteristics',
|
|
1254
|
+
'domain_of': ['Trait',
|
|
1255
|
+
'Domain',
|
|
1256
|
+
'Regnum',
|
|
1257
|
+
'Phylum',
|
|
1258
|
+
'Classis',
|
|
1259
|
+
'Ordo',
|
|
1260
|
+
'Familia',
|
|
1261
|
+
'Genus',
|
|
1262
|
+
'Species',
|
|
1263
|
+
'Subspecies',
|
|
1264
|
+
'Variant',
|
|
1265
|
+
'Cultivar',
|
|
1266
|
+
'Organism'],
|
|
1267
|
+
'slot_uri': 'lara:classis/characteristics'} })
|
|
1268
|
+
iri: Optional[str] = Field(None, description="""International Resource Identifier - IRI: is used for semantic representation """, json_schema_extra = { "linkml_meta": {'alias': 'iri',
|
|
1269
|
+
'domain_of': ['ExtraData',
|
|
1270
|
+
'HabitatClass',
|
|
1271
|
+
'HabitatParameter',
|
|
1272
|
+
'Habitat',
|
|
1273
|
+
'Trait',
|
|
1274
|
+
'Domain',
|
|
1275
|
+
'Regnum',
|
|
1276
|
+
'Phylum',
|
|
1277
|
+
'Classis',
|
|
1278
|
+
'Ordo',
|
|
1279
|
+
'Familia',
|
|
1280
|
+
'Genus',
|
|
1281
|
+
'Species',
|
|
1282
|
+
'Subspecies',
|
|
1283
|
+
'Variant',
|
|
1284
|
+
'Cultivar',
|
|
1285
|
+
'Organism'],
|
|
1286
|
+
'slot_uri': 'lara:classis/iri'} })
|
|
1287
|
+
description: Optional[str] = Field(None, description="""description of this classis""", json_schema_extra = { "linkml_meta": {'alias': 'description',
|
|
1288
|
+
'domain_of': ['ExtraData',
|
|
1289
|
+
'HabitatClass',
|
|
1290
|
+
'HabitatParameter',
|
|
1291
|
+
'Habitat',
|
|
1292
|
+
'Trait',
|
|
1293
|
+
'Domain',
|
|
1294
|
+
'Regnum',
|
|
1295
|
+
'Phylum',
|
|
1296
|
+
'Classis',
|
|
1297
|
+
'Ordo',
|
|
1298
|
+
'Familia',
|
|
1299
|
+
'Genus',
|
|
1300
|
+
'Species',
|
|
1301
|
+
'Subspecies',
|
|
1302
|
+
'Variant',
|
|
1303
|
+
'Cultivar',
|
|
1304
|
+
'Organism',
|
|
1305
|
+
'OrganismsSubset'],
|
|
1306
|
+
'slot_uri': 'lara:classis/description'} })
|
|
1307
|
+
datetime_last_modified: Optional[str] = Field(None, description="""date and time when habitat parameter data was last modified""", json_schema_extra = { "linkml_meta": {'alias': 'datetime_last_modified',
|
|
1308
|
+
'domain_of': ['ExtraData',
|
|
1309
|
+
'HabitatParameter',
|
|
1310
|
+
'Habitat',
|
|
1311
|
+
'Trait',
|
|
1312
|
+
'Domain',
|
|
1313
|
+
'Regnum',
|
|
1314
|
+
'Phylum',
|
|
1315
|
+
'Classis',
|
|
1316
|
+
'Ordo',
|
|
1317
|
+
'Familia',
|
|
1318
|
+
'Genus',
|
|
1319
|
+
'Species',
|
|
1320
|
+
'Subspecies',
|
|
1321
|
+
'Variant',
|
|
1322
|
+
'Cultivar',
|
|
1323
|
+
'Organism',
|
|
1324
|
+
'OrganismsSubset'],
|
|
1325
|
+
'slot_uri': 'lara:classis/datetime_last_modified'} })
|
|
1326
|
+
traits: Optional[List[str]] = Field(None, description="""General classis's traits / features / attributes""", json_schema_extra = { "linkml_meta": {'alias': 'traits',
|
|
1327
|
+
'domain_of': ['Domain',
|
|
1328
|
+
'Regnum',
|
|
1329
|
+
'Phylum',
|
|
1330
|
+
'Classis',
|
|
1331
|
+
'Ordo',
|
|
1332
|
+
'Familia',
|
|
1333
|
+
'Genus',
|
|
1334
|
+
'Species',
|
|
1335
|
+
'Subspecies',
|
|
1336
|
+
'Variant',
|
|
1337
|
+
'Cultivar',
|
|
1338
|
+
'Organism',
|
|
1339
|
+
'Container'],
|
|
1340
|
+
'slot_uri': 'lara:classis/traits'} })
|
|
1341
|
+
|
|
1342
|
+
|
|
1343
|
+
class Ordo(ConfiguredBaseModel):
|
|
1344
|
+
"""
|
|
1345
|
+
\" taxonomic Ordo / order \"
|
|
1346
|
+
"""
|
|
1347
|
+
linkml_meta: ClassVar[LinkMLMeta] = LinkMLMeta({'class_uri': 'lara:lara_django_organisms/ordo',
|
|
1348
|
+
'from_schema': 'https://w3id.org/lara/lara_django_organisms'})
|
|
1349
|
+
|
|
1350
|
+
ordo_id: Optional[str] = Field(None, description="""Ordo - primary key (UUID)""", json_schema_extra = { "linkml_meta": {'alias': 'ordo_id', 'domain_of': ['Ordo'], 'slot_uri': 'lara:ordo/ordo_id'} })
|
|
1351
|
+
name_display: str = Field(..., description="""human readable display name of the ordo, can contain spaces""", json_schema_extra = { "linkml_meta": {'alias': 'name_display',
|
|
1352
|
+
'domain_of': ['ExtraData',
|
|
1353
|
+
'HabitatParameter',
|
|
1354
|
+
'Habitat',
|
|
1355
|
+
'Trait',
|
|
1356
|
+
'Domain',
|
|
1357
|
+
'Regnum',
|
|
1358
|
+
'Phylum',
|
|
1359
|
+
'Classis',
|
|
1360
|
+
'Ordo',
|
|
1361
|
+
'Familia',
|
|
1362
|
+
'Genus',
|
|
1363
|
+
'Species',
|
|
1364
|
+
'Subspecies',
|
|
1365
|
+
'Variant',
|
|
1366
|
+
'Cultivar',
|
|
1367
|
+
'Organism',
|
|
1368
|
+
'OrganismsSubset'],
|
|
1369
|
+
'slot_uri': 'lara:ordo/name_display'} })
|
|
1370
|
+
name: Optional[str] = Field(None, description="""ordo name, like """, json_schema_extra = { "linkml_meta": {'alias': 'name',
|
|
1371
|
+
'domain_of': ['ExtraData',
|
|
1372
|
+
'HabitatClass',
|
|
1373
|
+
'HabitatParameter',
|
|
1374
|
+
'Habitat',
|
|
1375
|
+
'Trait',
|
|
1376
|
+
'Domain',
|
|
1377
|
+
'Regnum',
|
|
1378
|
+
'Phylum',
|
|
1379
|
+
'Classis',
|
|
1380
|
+
'Ordo',
|
|
1381
|
+
'Familia',
|
|
1382
|
+
'Genus',
|
|
1383
|
+
'Species',
|
|
1384
|
+
'Subspecies',
|
|
1385
|
+
'Variant',
|
|
1386
|
+
'Cultivar',
|
|
1387
|
+
'Organism',
|
|
1388
|
+
'OrganismsSubset'],
|
|
1389
|
+
'slot_uri': 'lara:ordo/name'} })
|
|
1390
|
+
name_common: Optional[str] = Field(None, description="""common ordo name, like """, json_schema_extra = { "linkml_meta": {'alias': 'name_common',
|
|
1391
|
+
'domain_of': ['Phylum',
|
|
1392
|
+
'Classis',
|
|
1393
|
+
'Ordo',
|
|
1394
|
+
'Familia',
|
|
1395
|
+
'Genus',
|
|
1396
|
+
'Species',
|
|
1397
|
+
'Subspecies',
|
|
1398
|
+
'Variant',
|
|
1399
|
+
'Cultivar',
|
|
1400
|
+
'Organism'],
|
|
1401
|
+
'slot_uri': 'lara:ordo/name_common'} })
|
|
1402
|
+
characteristics: Optional[str] = Field(None, description="""Generic characteristics of this ordo, use 'traits' for specific traits.""", json_schema_extra = { "linkml_meta": {'alias': 'characteristics',
|
|
1403
|
+
'domain_of': ['Trait',
|
|
1404
|
+
'Domain',
|
|
1405
|
+
'Regnum',
|
|
1406
|
+
'Phylum',
|
|
1407
|
+
'Classis',
|
|
1408
|
+
'Ordo',
|
|
1409
|
+
'Familia',
|
|
1410
|
+
'Genus',
|
|
1411
|
+
'Species',
|
|
1412
|
+
'Subspecies',
|
|
1413
|
+
'Variant',
|
|
1414
|
+
'Cultivar',
|
|
1415
|
+
'Organism'],
|
|
1416
|
+
'slot_uri': 'lara:ordo/characteristics'} })
|
|
1417
|
+
iri: Optional[str] = Field(None, description="""International Resource Identifier - IRI: is used for semantic representation """, json_schema_extra = { "linkml_meta": {'alias': 'iri',
|
|
1418
|
+
'domain_of': ['ExtraData',
|
|
1419
|
+
'HabitatClass',
|
|
1420
|
+
'HabitatParameter',
|
|
1421
|
+
'Habitat',
|
|
1422
|
+
'Trait',
|
|
1423
|
+
'Domain',
|
|
1424
|
+
'Regnum',
|
|
1425
|
+
'Phylum',
|
|
1426
|
+
'Classis',
|
|
1427
|
+
'Ordo',
|
|
1428
|
+
'Familia',
|
|
1429
|
+
'Genus',
|
|
1430
|
+
'Species',
|
|
1431
|
+
'Subspecies',
|
|
1432
|
+
'Variant',
|
|
1433
|
+
'Cultivar',
|
|
1434
|
+
'Organism'],
|
|
1435
|
+
'slot_uri': 'lara:ordo/iri'} })
|
|
1436
|
+
description: Optional[str] = Field(None, description="""description of this ordo""", json_schema_extra = { "linkml_meta": {'alias': 'description',
|
|
1437
|
+
'domain_of': ['ExtraData',
|
|
1438
|
+
'HabitatClass',
|
|
1439
|
+
'HabitatParameter',
|
|
1440
|
+
'Habitat',
|
|
1441
|
+
'Trait',
|
|
1442
|
+
'Domain',
|
|
1443
|
+
'Regnum',
|
|
1444
|
+
'Phylum',
|
|
1445
|
+
'Classis',
|
|
1446
|
+
'Ordo',
|
|
1447
|
+
'Familia',
|
|
1448
|
+
'Genus',
|
|
1449
|
+
'Species',
|
|
1450
|
+
'Subspecies',
|
|
1451
|
+
'Variant',
|
|
1452
|
+
'Cultivar',
|
|
1453
|
+
'Organism',
|
|
1454
|
+
'OrganismsSubset'],
|
|
1455
|
+
'slot_uri': 'lara:ordo/description'} })
|
|
1456
|
+
datetime_last_modified: Optional[str] = Field(None, description="""date and time when habitat parameter data was last modified""", json_schema_extra = { "linkml_meta": {'alias': 'datetime_last_modified',
|
|
1457
|
+
'domain_of': ['ExtraData',
|
|
1458
|
+
'HabitatParameter',
|
|
1459
|
+
'Habitat',
|
|
1460
|
+
'Trait',
|
|
1461
|
+
'Domain',
|
|
1462
|
+
'Regnum',
|
|
1463
|
+
'Phylum',
|
|
1464
|
+
'Classis',
|
|
1465
|
+
'Ordo',
|
|
1466
|
+
'Familia',
|
|
1467
|
+
'Genus',
|
|
1468
|
+
'Species',
|
|
1469
|
+
'Subspecies',
|
|
1470
|
+
'Variant',
|
|
1471
|
+
'Cultivar',
|
|
1472
|
+
'Organism',
|
|
1473
|
+
'OrganismsSubset'],
|
|
1474
|
+
'slot_uri': 'lara:ordo/datetime_last_modified'} })
|
|
1475
|
+
traits: Optional[List[str]] = Field(None, description="""General ordo's traits / features / attributes""", json_schema_extra = { "linkml_meta": {'alias': 'traits',
|
|
1476
|
+
'domain_of': ['Domain',
|
|
1477
|
+
'Regnum',
|
|
1478
|
+
'Phylum',
|
|
1479
|
+
'Classis',
|
|
1480
|
+
'Ordo',
|
|
1481
|
+
'Familia',
|
|
1482
|
+
'Genus',
|
|
1483
|
+
'Species',
|
|
1484
|
+
'Subspecies',
|
|
1485
|
+
'Variant',
|
|
1486
|
+
'Cultivar',
|
|
1487
|
+
'Organism',
|
|
1488
|
+
'Container'],
|
|
1489
|
+
'slot_uri': 'lara:ordo/traits'} })
|
|
1490
|
+
|
|
1491
|
+
|
|
1492
|
+
class Familia(ConfiguredBaseModel):
|
|
1493
|
+
"""
|
|
1494
|
+
\" taxonomic Familia / Family \"
|
|
1495
|
+
"""
|
|
1496
|
+
linkml_meta: ClassVar[LinkMLMeta] = LinkMLMeta({'class_uri': 'lara:lara_django_organisms/familia',
|
|
1497
|
+
'from_schema': 'https://w3id.org/lara/lara_django_organisms'})
|
|
1498
|
+
|
|
1499
|
+
familia_id: Optional[str] = Field(None, description="""Familia - primary key (UUID)""", json_schema_extra = { "linkml_meta": {'alias': 'familia_id',
|
|
1500
|
+
'domain_of': ['Familia'],
|
|
1501
|
+
'slot_uri': 'lara:familia/familia_id'} })
|
|
1502
|
+
name_display: str = Field(..., description="""human readable display name of the familia, can contain spaces""", json_schema_extra = { "linkml_meta": {'alias': 'name_display',
|
|
1503
|
+
'domain_of': ['ExtraData',
|
|
1504
|
+
'HabitatParameter',
|
|
1505
|
+
'Habitat',
|
|
1506
|
+
'Trait',
|
|
1507
|
+
'Domain',
|
|
1508
|
+
'Regnum',
|
|
1509
|
+
'Phylum',
|
|
1510
|
+
'Classis',
|
|
1511
|
+
'Ordo',
|
|
1512
|
+
'Familia',
|
|
1513
|
+
'Genus',
|
|
1514
|
+
'Species',
|
|
1515
|
+
'Subspecies',
|
|
1516
|
+
'Variant',
|
|
1517
|
+
'Cultivar',
|
|
1518
|
+
'Organism',
|
|
1519
|
+
'OrganismsSubset'],
|
|
1520
|
+
'slot_uri': 'lara:familia/name_display'} })
|
|
1521
|
+
name: Optional[str] = Field(None, description="""familia name, like """, json_schema_extra = { "linkml_meta": {'alias': 'name',
|
|
1522
|
+
'domain_of': ['ExtraData',
|
|
1523
|
+
'HabitatClass',
|
|
1524
|
+
'HabitatParameter',
|
|
1525
|
+
'Habitat',
|
|
1526
|
+
'Trait',
|
|
1527
|
+
'Domain',
|
|
1528
|
+
'Regnum',
|
|
1529
|
+
'Phylum',
|
|
1530
|
+
'Classis',
|
|
1531
|
+
'Ordo',
|
|
1532
|
+
'Familia',
|
|
1533
|
+
'Genus',
|
|
1534
|
+
'Species',
|
|
1535
|
+
'Subspecies',
|
|
1536
|
+
'Variant',
|
|
1537
|
+
'Cultivar',
|
|
1538
|
+
'Organism',
|
|
1539
|
+
'OrganismsSubset'],
|
|
1540
|
+
'slot_uri': 'lara:familia/name'} })
|
|
1541
|
+
name_common: Optional[str] = Field(None, description="""common familia name, like """, json_schema_extra = { "linkml_meta": {'alias': 'name_common',
|
|
1542
|
+
'domain_of': ['Phylum',
|
|
1543
|
+
'Classis',
|
|
1544
|
+
'Ordo',
|
|
1545
|
+
'Familia',
|
|
1546
|
+
'Genus',
|
|
1547
|
+
'Species',
|
|
1548
|
+
'Subspecies',
|
|
1549
|
+
'Variant',
|
|
1550
|
+
'Cultivar',
|
|
1551
|
+
'Organism'],
|
|
1552
|
+
'slot_uri': 'lara:familia/name_common'} })
|
|
1553
|
+
characteristics: Optional[str] = Field(None, description="""Generic characteristics of this familia, use 'traits' for specific traits.""", json_schema_extra = { "linkml_meta": {'alias': 'characteristics',
|
|
1554
|
+
'domain_of': ['Trait',
|
|
1555
|
+
'Domain',
|
|
1556
|
+
'Regnum',
|
|
1557
|
+
'Phylum',
|
|
1558
|
+
'Classis',
|
|
1559
|
+
'Ordo',
|
|
1560
|
+
'Familia',
|
|
1561
|
+
'Genus',
|
|
1562
|
+
'Species',
|
|
1563
|
+
'Subspecies',
|
|
1564
|
+
'Variant',
|
|
1565
|
+
'Cultivar',
|
|
1566
|
+
'Organism'],
|
|
1567
|
+
'slot_uri': 'lara:familia/characteristics'} })
|
|
1568
|
+
iri: Optional[str] = Field(None, description="""International Resource Identifier - IRI: is used for semantic representation """, json_schema_extra = { "linkml_meta": {'alias': 'iri',
|
|
1569
|
+
'domain_of': ['ExtraData',
|
|
1570
|
+
'HabitatClass',
|
|
1571
|
+
'HabitatParameter',
|
|
1572
|
+
'Habitat',
|
|
1573
|
+
'Trait',
|
|
1574
|
+
'Domain',
|
|
1575
|
+
'Regnum',
|
|
1576
|
+
'Phylum',
|
|
1577
|
+
'Classis',
|
|
1578
|
+
'Ordo',
|
|
1579
|
+
'Familia',
|
|
1580
|
+
'Genus',
|
|
1581
|
+
'Species',
|
|
1582
|
+
'Subspecies',
|
|
1583
|
+
'Variant',
|
|
1584
|
+
'Cultivar',
|
|
1585
|
+
'Organism'],
|
|
1586
|
+
'slot_uri': 'lara:familia/iri'} })
|
|
1587
|
+
description: Optional[str] = Field(None, description="""description of this familia""", json_schema_extra = { "linkml_meta": {'alias': 'description',
|
|
1588
|
+
'domain_of': ['ExtraData',
|
|
1589
|
+
'HabitatClass',
|
|
1590
|
+
'HabitatParameter',
|
|
1591
|
+
'Habitat',
|
|
1592
|
+
'Trait',
|
|
1593
|
+
'Domain',
|
|
1594
|
+
'Regnum',
|
|
1595
|
+
'Phylum',
|
|
1596
|
+
'Classis',
|
|
1597
|
+
'Ordo',
|
|
1598
|
+
'Familia',
|
|
1599
|
+
'Genus',
|
|
1600
|
+
'Species',
|
|
1601
|
+
'Subspecies',
|
|
1602
|
+
'Variant',
|
|
1603
|
+
'Cultivar',
|
|
1604
|
+
'Organism',
|
|
1605
|
+
'OrganismsSubset'],
|
|
1606
|
+
'slot_uri': 'lara:familia/description'} })
|
|
1607
|
+
datetime_last_modified: Optional[str] = Field(None, description="""date and time when habitat parameter data was last modified""", json_schema_extra = { "linkml_meta": {'alias': 'datetime_last_modified',
|
|
1608
|
+
'domain_of': ['ExtraData',
|
|
1609
|
+
'HabitatParameter',
|
|
1610
|
+
'Habitat',
|
|
1611
|
+
'Trait',
|
|
1612
|
+
'Domain',
|
|
1613
|
+
'Regnum',
|
|
1614
|
+
'Phylum',
|
|
1615
|
+
'Classis',
|
|
1616
|
+
'Ordo',
|
|
1617
|
+
'Familia',
|
|
1618
|
+
'Genus',
|
|
1619
|
+
'Species',
|
|
1620
|
+
'Subspecies',
|
|
1621
|
+
'Variant',
|
|
1622
|
+
'Cultivar',
|
|
1623
|
+
'Organism',
|
|
1624
|
+
'OrganismsSubset'],
|
|
1625
|
+
'slot_uri': 'lara:familia/datetime_last_modified'} })
|
|
1626
|
+
traits: Optional[List[str]] = Field(None, description="""General familia's traits / features / attributes""", json_schema_extra = { "linkml_meta": {'alias': 'traits',
|
|
1627
|
+
'domain_of': ['Domain',
|
|
1628
|
+
'Regnum',
|
|
1629
|
+
'Phylum',
|
|
1630
|
+
'Classis',
|
|
1631
|
+
'Ordo',
|
|
1632
|
+
'Familia',
|
|
1633
|
+
'Genus',
|
|
1634
|
+
'Species',
|
|
1635
|
+
'Subspecies',
|
|
1636
|
+
'Variant',
|
|
1637
|
+
'Cultivar',
|
|
1638
|
+
'Organism',
|
|
1639
|
+
'Container'],
|
|
1640
|
+
'slot_uri': 'lara:familia/traits'} })
|
|
1641
|
+
|
|
1642
|
+
|
|
1643
|
+
class Genus(ConfiguredBaseModel):
|
|
1644
|
+
"""
|
|
1645
|
+
\" taxonomic Genus \"
|
|
1646
|
+
"""
|
|
1647
|
+
linkml_meta: ClassVar[LinkMLMeta] = LinkMLMeta({'class_uri': 'lara:lara_django_organisms/genus',
|
|
1648
|
+
'from_schema': 'https://w3id.org/lara/lara_django_organisms'})
|
|
1649
|
+
|
|
1650
|
+
genus_id: Optional[str] = Field(None, description="""Genus - primary key (UUID)""", json_schema_extra = { "linkml_meta": {'alias': 'genus_id', 'domain_of': ['Genus'], 'slot_uri': 'lara:genus/genus_id'} })
|
|
1651
|
+
name_display: str = Field(..., description="""human readable display name of the genus, can contain spaces""", json_schema_extra = { "linkml_meta": {'alias': 'name_display',
|
|
1652
|
+
'domain_of': ['ExtraData',
|
|
1653
|
+
'HabitatParameter',
|
|
1654
|
+
'Habitat',
|
|
1655
|
+
'Trait',
|
|
1656
|
+
'Domain',
|
|
1657
|
+
'Regnum',
|
|
1658
|
+
'Phylum',
|
|
1659
|
+
'Classis',
|
|
1660
|
+
'Ordo',
|
|
1661
|
+
'Familia',
|
|
1662
|
+
'Genus',
|
|
1663
|
+
'Species',
|
|
1664
|
+
'Subspecies',
|
|
1665
|
+
'Variant',
|
|
1666
|
+
'Cultivar',
|
|
1667
|
+
'Organism',
|
|
1668
|
+
'OrganismsSubset'],
|
|
1669
|
+
'slot_uri': 'lara:genus/name_display'} })
|
|
1670
|
+
name: Optional[str] = Field(None, description="""genus name, like """, json_schema_extra = { "linkml_meta": {'alias': 'name',
|
|
1671
|
+
'domain_of': ['ExtraData',
|
|
1672
|
+
'HabitatClass',
|
|
1673
|
+
'HabitatParameter',
|
|
1674
|
+
'Habitat',
|
|
1675
|
+
'Trait',
|
|
1676
|
+
'Domain',
|
|
1677
|
+
'Regnum',
|
|
1678
|
+
'Phylum',
|
|
1679
|
+
'Classis',
|
|
1680
|
+
'Ordo',
|
|
1681
|
+
'Familia',
|
|
1682
|
+
'Genus',
|
|
1683
|
+
'Species',
|
|
1684
|
+
'Subspecies',
|
|
1685
|
+
'Variant',
|
|
1686
|
+
'Cultivar',
|
|
1687
|
+
'Organism',
|
|
1688
|
+
'OrganismsSubset'],
|
|
1689
|
+
'slot_uri': 'lara:genus/name'} })
|
|
1690
|
+
name_common: Optional[str] = Field(None, description="""common genus name, like """, json_schema_extra = { "linkml_meta": {'alias': 'name_common',
|
|
1691
|
+
'domain_of': ['Phylum',
|
|
1692
|
+
'Classis',
|
|
1693
|
+
'Ordo',
|
|
1694
|
+
'Familia',
|
|
1695
|
+
'Genus',
|
|
1696
|
+
'Species',
|
|
1697
|
+
'Subspecies',
|
|
1698
|
+
'Variant',
|
|
1699
|
+
'Cultivar',
|
|
1700
|
+
'Organism'],
|
|
1701
|
+
'slot_uri': 'lara:genus/name_common'} })
|
|
1702
|
+
characteristics: Optional[str] = Field(None, description="""General characteristics of this genus, use 'traits' for specific traits.""", json_schema_extra = { "linkml_meta": {'alias': 'characteristics',
|
|
1703
|
+
'domain_of': ['Trait',
|
|
1704
|
+
'Domain',
|
|
1705
|
+
'Regnum',
|
|
1706
|
+
'Phylum',
|
|
1707
|
+
'Classis',
|
|
1708
|
+
'Ordo',
|
|
1709
|
+
'Familia',
|
|
1710
|
+
'Genus',
|
|
1711
|
+
'Species',
|
|
1712
|
+
'Subspecies',
|
|
1713
|
+
'Variant',
|
|
1714
|
+
'Cultivar',
|
|
1715
|
+
'Organism'],
|
|
1716
|
+
'slot_uri': 'lara:genus/characteristics'} })
|
|
1717
|
+
iri: Optional[str] = Field(None, description="""International Resource Identifier - IRI: is used for semantic representation """, json_schema_extra = { "linkml_meta": {'alias': 'iri',
|
|
1718
|
+
'domain_of': ['ExtraData',
|
|
1719
|
+
'HabitatClass',
|
|
1720
|
+
'HabitatParameter',
|
|
1721
|
+
'Habitat',
|
|
1722
|
+
'Trait',
|
|
1723
|
+
'Domain',
|
|
1724
|
+
'Regnum',
|
|
1725
|
+
'Phylum',
|
|
1726
|
+
'Classis',
|
|
1727
|
+
'Ordo',
|
|
1728
|
+
'Familia',
|
|
1729
|
+
'Genus',
|
|
1730
|
+
'Species',
|
|
1731
|
+
'Subspecies',
|
|
1732
|
+
'Variant',
|
|
1733
|
+
'Cultivar',
|
|
1734
|
+
'Organism'],
|
|
1735
|
+
'slot_uri': 'lara:genus/iri'} })
|
|
1736
|
+
description: Optional[str] = Field(None, description="""description of this genus""", json_schema_extra = { "linkml_meta": {'alias': 'description',
|
|
1737
|
+
'domain_of': ['ExtraData',
|
|
1738
|
+
'HabitatClass',
|
|
1739
|
+
'HabitatParameter',
|
|
1740
|
+
'Habitat',
|
|
1741
|
+
'Trait',
|
|
1742
|
+
'Domain',
|
|
1743
|
+
'Regnum',
|
|
1744
|
+
'Phylum',
|
|
1745
|
+
'Classis',
|
|
1746
|
+
'Ordo',
|
|
1747
|
+
'Familia',
|
|
1748
|
+
'Genus',
|
|
1749
|
+
'Species',
|
|
1750
|
+
'Subspecies',
|
|
1751
|
+
'Variant',
|
|
1752
|
+
'Cultivar',
|
|
1753
|
+
'Organism',
|
|
1754
|
+
'OrganismsSubset'],
|
|
1755
|
+
'slot_uri': 'lara:genus/description'} })
|
|
1756
|
+
datetime_last_modified: Optional[str] = Field(None, description="""date and time when habitat parameter data was last modified""", json_schema_extra = { "linkml_meta": {'alias': 'datetime_last_modified',
|
|
1757
|
+
'domain_of': ['ExtraData',
|
|
1758
|
+
'HabitatParameter',
|
|
1759
|
+
'Habitat',
|
|
1760
|
+
'Trait',
|
|
1761
|
+
'Domain',
|
|
1762
|
+
'Regnum',
|
|
1763
|
+
'Phylum',
|
|
1764
|
+
'Classis',
|
|
1765
|
+
'Ordo',
|
|
1766
|
+
'Familia',
|
|
1767
|
+
'Genus',
|
|
1768
|
+
'Species',
|
|
1769
|
+
'Subspecies',
|
|
1770
|
+
'Variant',
|
|
1771
|
+
'Cultivar',
|
|
1772
|
+
'Organism',
|
|
1773
|
+
'OrganismsSubset'],
|
|
1774
|
+
'slot_uri': 'lara:genus/datetime_last_modified'} })
|
|
1775
|
+
traits: Optional[List[str]] = Field(None, description="""General genus's traits / features / attributes""", json_schema_extra = { "linkml_meta": {'alias': 'traits',
|
|
1776
|
+
'domain_of': ['Domain',
|
|
1777
|
+
'Regnum',
|
|
1778
|
+
'Phylum',
|
|
1779
|
+
'Classis',
|
|
1780
|
+
'Ordo',
|
|
1781
|
+
'Familia',
|
|
1782
|
+
'Genus',
|
|
1783
|
+
'Species',
|
|
1784
|
+
'Subspecies',
|
|
1785
|
+
'Variant',
|
|
1786
|
+
'Cultivar',
|
|
1787
|
+
'Organism',
|
|
1788
|
+
'Container'],
|
|
1789
|
+
'slot_uri': 'lara:genus/traits'} })
|
|
1790
|
+
|
|
1791
|
+
|
|
1792
|
+
class Species(ConfiguredBaseModel):
|
|
1793
|
+
"""
|
|
1794
|
+
\" taxonomic Species \"
|
|
1795
|
+
"""
|
|
1796
|
+
linkml_meta: ClassVar[LinkMLMeta] = LinkMLMeta({'class_uri': 'lara:lara_django_organisms/species',
|
|
1797
|
+
'from_schema': 'https://w3id.org/lara/lara_django_organisms'})
|
|
1798
|
+
|
|
1799
|
+
species_id: Optional[str] = Field(None, description="""Species - primary key (UUID)""", json_schema_extra = { "linkml_meta": {'alias': 'species_id',
|
|
1800
|
+
'domain_of': ['Species'],
|
|
1801
|
+
'slot_uri': 'lara:species/species_id'} })
|
|
1802
|
+
name_display: str = Field(..., description="""human readable display name of the species, can contain spaces""", json_schema_extra = { "linkml_meta": {'alias': 'name_display',
|
|
1803
|
+
'domain_of': ['ExtraData',
|
|
1804
|
+
'HabitatParameter',
|
|
1805
|
+
'Habitat',
|
|
1806
|
+
'Trait',
|
|
1807
|
+
'Domain',
|
|
1808
|
+
'Regnum',
|
|
1809
|
+
'Phylum',
|
|
1810
|
+
'Classis',
|
|
1811
|
+
'Ordo',
|
|
1812
|
+
'Familia',
|
|
1813
|
+
'Genus',
|
|
1814
|
+
'Species',
|
|
1815
|
+
'Subspecies',
|
|
1816
|
+
'Variant',
|
|
1817
|
+
'Cultivar',
|
|
1818
|
+
'Organism',
|
|
1819
|
+
'OrganismsSubset'],
|
|
1820
|
+
'slot_uri': 'lara:species/name_display'} })
|
|
1821
|
+
name: Optional[str] = Field(None, description="""species name, like """, json_schema_extra = { "linkml_meta": {'alias': 'name',
|
|
1822
|
+
'domain_of': ['ExtraData',
|
|
1823
|
+
'HabitatClass',
|
|
1824
|
+
'HabitatParameter',
|
|
1825
|
+
'Habitat',
|
|
1826
|
+
'Trait',
|
|
1827
|
+
'Domain',
|
|
1828
|
+
'Regnum',
|
|
1829
|
+
'Phylum',
|
|
1830
|
+
'Classis',
|
|
1831
|
+
'Ordo',
|
|
1832
|
+
'Familia',
|
|
1833
|
+
'Genus',
|
|
1834
|
+
'Species',
|
|
1835
|
+
'Subspecies',
|
|
1836
|
+
'Variant',
|
|
1837
|
+
'Cultivar',
|
|
1838
|
+
'Organism',
|
|
1839
|
+
'OrganismsSubset'],
|
|
1840
|
+
'slot_uri': 'lara:species/name'} })
|
|
1841
|
+
name_common: Optional[str] = Field(None, description="""common species name, like """, json_schema_extra = { "linkml_meta": {'alias': 'name_common',
|
|
1842
|
+
'domain_of': ['Phylum',
|
|
1843
|
+
'Classis',
|
|
1844
|
+
'Ordo',
|
|
1845
|
+
'Familia',
|
|
1846
|
+
'Genus',
|
|
1847
|
+
'Species',
|
|
1848
|
+
'Subspecies',
|
|
1849
|
+
'Variant',
|
|
1850
|
+
'Cultivar',
|
|
1851
|
+
'Organism'],
|
|
1852
|
+
'slot_uri': 'lara:species/name_common'} })
|
|
1853
|
+
characteristics: Optional[str] = Field(None, description="""General characteristics of this species, use 'traits' for specific traits.""", json_schema_extra = { "linkml_meta": {'alias': 'characteristics',
|
|
1854
|
+
'domain_of': ['Trait',
|
|
1855
|
+
'Domain',
|
|
1856
|
+
'Regnum',
|
|
1857
|
+
'Phylum',
|
|
1858
|
+
'Classis',
|
|
1859
|
+
'Ordo',
|
|
1860
|
+
'Familia',
|
|
1861
|
+
'Genus',
|
|
1862
|
+
'Species',
|
|
1863
|
+
'Subspecies',
|
|
1864
|
+
'Variant',
|
|
1865
|
+
'Cultivar',
|
|
1866
|
+
'Organism'],
|
|
1867
|
+
'slot_uri': 'lara:species/characteristics'} })
|
|
1868
|
+
iri: Optional[str] = Field(None, description="""International Resource Identifier - IRI: is used for semantic representation """, json_schema_extra = { "linkml_meta": {'alias': 'iri',
|
|
1869
|
+
'domain_of': ['ExtraData',
|
|
1870
|
+
'HabitatClass',
|
|
1871
|
+
'HabitatParameter',
|
|
1872
|
+
'Habitat',
|
|
1873
|
+
'Trait',
|
|
1874
|
+
'Domain',
|
|
1875
|
+
'Regnum',
|
|
1876
|
+
'Phylum',
|
|
1877
|
+
'Classis',
|
|
1878
|
+
'Ordo',
|
|
1879
|
+
'Familia',
|
|
1880
|
+
'Genus',
|
|
1881
|
+
'Species',
|
|
1882
|
+
'Subspecies',
|
|
1883
|
+
'Variant',
|
|
1884
|
+
'Cultivar',
|
|
1885
|
+
'Organism'],
|
|
1886
|
+
'slot_uri': 'lara:species/iri'} })
|
|
1887
|
+
description: Optional[str] = Field(None, description="""description of this species""", json_schema_extra = { "linkml_meta": {'alias': 'description',
|
|
1888
|
+
'domain_of': ['ExtraData',
|
|
1889
|
+
'HabitatClass',
|
|
1890
|
+
'HabitatParameter',
|
|
1891
|
+
'Habitat',
|
|
1892
|
+
'Trait',
|
|
1893
|
+
'Domain',
|
|
1894
|
+
'Regnum',
|
|
1895
|
+
'Phylum',
|
|
1896
|
+
'Classis',
|
|
1897
|
+
'Ordo',
|
|
1898
|
+
'Familia',
|
|
1899
|
+
'Genus',
|
|
1900
|
+
'Species',
|
|
1901
|
+
'Subspecies',
|
|
1902
|
+
'Variant',
|
|
1903
|
+
'Cultivar',
|
|
1904
|
+
'Organism',
|
|
1905
|
+
'OrganismsSubset'],
|
|
1906
|
+
'slot_uri': 'lara:species/description'} })
|
|
1907
|
+
datetime_last_modified: Optional[str] = Field(None, description="""date and time when habitat parameter data was last modified""", json_schema_extra = { "linkml_meta": {'alias': 'datetime_last_modified',
|
|
1908
|
+
'domain_of': ['ExtraData',
|
|
1909
|
+
'HabitatParameter',
|
|
1910
|
+
'Habitat',
|
|
1911
|
+
'Trait',
|
|
1912
|
+
'Domain',
|
|
1913
|
+
'Regnum',
|
|
1914
|
+
'Phylum',
|
|
1915
|
+
'Classis',
|
|
1916
|
+
'Ordo',
|
|
1917
|
+
'Familia',
|
|
1918
|
+
'Genus',
|
|
1919
|
+
'Species',
|
|
1920
|
+
'Subspecies',
|
|
1921
|
+
'Variant',
|
|
1922
|
+
'Cultivar',
|
|
1923
|
+
'Organism',
|
|
1924
|
+
'OrganismsSubset'],
|
|
1925
|
+
'slot_uri': 'lara:species/datetime_last_modified'} })
|
|
1926
|
+
traits: Optional[List[str]] = Field(None, description="""General species's traits / features / attributes""", json_schema_extra = { "linkml_meta": {'alias': 'traits',
|
|
1927
|
+
'domain_of': ['Domain',
|
|
1928
|
+
'Regnum',
|
|
1929
|
+
'Phylum',
|
|
1930
|
+
'Classis',
|
|
1931
|
+
'Ordo',
|
|
1932
|
+
'Familia',
|
|
1933
|
+
'Genus',
|
|
1934
|
+
'Species',
|
|
1935
|
+
'Subspecies',
|
|
1936
|
+
'Variant',
|
|
1937
|
+
'Cultivar',
|
|
1938
|
+
'Organism',
|
|
1939
|
+
'Container'],
|
|
1940
|
+
'slot_uri': 'lara:species/traits'} })
|
|
1941
|
+
|
|
1942
|
+
|
|
1943
|
+
class Subspecies(ConfiguredBaseModel):
|
|
1944
|
+
"""
|
|
1945
|
+
\" taxonomic Subspecies \"
|
|
1946
|
+
"""
|
|
1947
|
+
linkml_meta: ClassVar[LinkMLMeta] = LinkMLMeta({'class_uri': 'lara:lara_django_organisms/subspecies',
|
|
1948
|
+
'from_schema': 'https://w3id.org/lara/lara_django_organisms'})
|
|
1949
|
+
|
|
1950
|
+
subspecies_id: Optional[str] = Field(None, description="""Subspecies - primary key (UUID)""", json_schema_extra = { "linkml_meta": {'alias': 'subspecies_id',
|
|
1951
|
+
'domain_of': ['Subspecies'],
|
|
1952
|
+
'slot_uri': 'lara:subspecies/subspecies_id'} })
|
|
1953
|
+
name_display: str = Field(..., description="""human readable display name of the subspecies, can contain spaces""", json_schema_extra = { "linkml_meta": {'alias': 'name_display',
|
|
1954
|
+
'domain_of': ['ExtraData',
|
|
1955
|
+
'HabitatParameter',
|
|
1956
|
+
'Habitat',
|
|
1957
|
+
'Trait',
|
|
1958
|
+
'Domain',
|
|
1959
|
+
'Regnum',
|
|
1960
|
+
'Phylum',
|
|
1961
|
+
'Classis',
|
|
1962
|
+
'Ordo',
|
|
1963
|
+
'Familia',
|
|
1964
|
+
'Genus',
|
|
1965
|
+
'Species',
|
|
1966
|
+
'Subspecies',
|
|
1967
|
+
'Variant',
|
|
1968
|
+
'Cultivar',
|
|
1969
|
+
'Organism',
|
|
1970
|
+
'OrganismsSubset'],
|
|
1971
|
+
'slot_uri': 'lara:subspecies/name_display'} })
|
|
1972
|
+
name: Optional[str] = Field(None, description="""subspecies name, like """, json_schema_extra = { "linkml_meta": {'alias': 'name',
|
|
1973
|
+
'domain_of': ['ExtraData',
|
|
1974
|
+
'HabitatClass',
|
|
1975
|
+
'HabitatParameter',
|
|
1976
|
+
'Habitat',
|
|
1977
|
+
'Trait',
|
|
1978
|
+
'Domain',
|
|
1979
|
+
'Regnum',
|
|
1980
|
+
'Phylum',
|
|
1981
|
+
'Classis',
|
|
1982
|
+
'Ordo',
|
|
1983
|
+
'Familia',
|
|
1984
|
+
'Genus',
|
|
1985
|
+
'Species',
|
|
1986
|
+
'Subspecies',
|
|
1987
|
+
'Variant',
|
|
1988
|
+
'Cultivar',
|
|
1989
|
+
'Organism',
|
|
1990
|
+
'OrganismsSubset'],
|
|
1991
|
+
'slot_uri': 'lara:subspecies/name'} })
|
|
1992
|
+
name_common: Optional[str] = Field(None, description="""common subspecies name, like """, json_schema_extra = { "linkml_meta": {'alias': 'name_common',
|
|
1993
|
+
'domain_of': ['Phylum',
|
|
1994
|
+
'Classis',
|
|
1995
|
+
'Ordo',
|
|
1996
|
+
'Familia',
|
|
1997
|
+
'Genus',
|
|
1998
|
+
'Species',
|
|
1999
|
+
'Subspecies',
|
|
2000
|
+
'Variant',
|
|
2001
|
+
'Cultivar',
|
|
2002
|
+
'Organism'],
|
|
2003
|
+
'slot_uri': 'lara:subspecies/name_common'} })
|
|
2004
|
+
characteristics: Optional[str] = Field(None, description="""General characteristics of this subspecies, use 'traits' for specific traits.""", json_schema_extra = { "linkml_meta": {'alias': 'characteristics',
|
|
2005
|
+
'domain_of': ['Trait',
|
|
2006
|
+
'Domain',
|
|
2007
|
+
'Regnum',
|
|
2008
|
+
'Phylum',
|
|
2009
|
+
'Classis',
|
|
2010
|
+
'Ordo',
|
|
2011
|
+
'Familia',
|
|
2012
|
+
'Genus',
|
|
2013
|
+
'Species',
|
|
2014
|
+
'Subspecies',
|
|
2015
|
+
'Variant',
|
|
2016
|
+
'Cultivar',
|
|
2017
|
+
'Organism'],
|
|
2018
|
+
'slot_uri': 'lara:subspecies/characteristics'} })
|
|
2019
|
+
iri: Optional[str] = Field(None, description="""International Resource Identifier - IRI: is used for semantic representation """, json_schema_extra = { "linkml_meta": {'alias': 'iri',
|
|
2020
|
+
'domain_of': ['ExtraData',
|
|
2021
|
+
'HabitatClass',
|
|
2022
|
+
'HabitatParameter',
|
|
2023
|
+
'Habitat',
|
|
2024
|
+
'Trait',
|
|
2025
|
+
'Domain',
|
|
2026
|
+
'Regnum',
|
|
2027
|
+
'Phylum',
|
|
2028
|
+
'Classis',
|
|
2029
|
+
'Ordo',
|
|
2030
|
+
'Familia',
|
|
2031
|
+
'Genus',
|
|
2032
|
+
'Species',
|
|
2033
|
+
'Subspecies',
|
|
2034
|
+
'Variant',
|
|
2035
|
+
'Cultivar',
|
|
2036
|
+
'Organism'],
|
|
2037
|
+
'slot_uri': 'lara:subspecies/iri'} })
|
|
2038
|
+
description: Optional[str] = Field(None, description="""description of this subspecies""", json_schema_extra = { "linkml_meta": {'alias': 'description',
|
|
2039
|
+
'domain_of': ['ExtraData',
|
|
2040
|
+
'HabitatClass',
|
|
2041
|
+
'HabitatParameter',
|
|
2042
|
+
'Habitat',
|
|
2043
|
+
'Trait',
|
|
2044
|
+
'Domain',
|
|
2045
|
+
'Regnum',
|
|
2046
|
+
'Phylum',
|
|
2047
|
+
'Classis',
|
|
2048
|
+
'Ordo',
|
|
2049
|
+
'Familia',
|
|
2050
|
+
'Genus',
|
|
2051
|
+
'Species',
|
|
2052
|
+
'Subspecies',
|
|
2053
|
+
'Variant',
|
|
2054
|
+
'Cultivar',
|
|
2055
|
+
'Organism',
|
|
2056
|
+
'OrganismsSubset'],
|
|
2057
|
+
'slot_uri': 'lara:subspecies/description'} })
|
|
2058
|
+
datetime_last_modified: Optional[str] = Field(None, description="""date and time when habitat parameter data was last modified""", json_schema_extra = { "linkml_meta": {'alias': 'datetime_last_modified',
|
|
2059
|
+
'domain_of': ['ExtraData',
|
|
2060
|
+
'HabitatParameter',
|
|
2061
|
+
'Habitat',
|
|
2062
|
+
'Trait',
|
|
2063
|
+
'Domain',
|
|
2064
|
+
'Regnum',
|
|
2065
|
+
'Phylum',
|
|
2066
|
+
'Classis',
|
|
2067
|
+
'Ordo',
|
|
2068
|
+
'Familia',
|
|
2069
|
+
'Genus',
|
|
2070
|
+
'Species',
|
|
2071
|
+
'Subspecies',
|
|
2072
|
+
'Variant',
|
|
2073
|
+
'Cultivar',
|
|
2074
|
+
'Organism',
|
|
2075
|
+
'OrganismsSubset'],
|
|
2076
|
+
'slot_uri': 'lara:subspecies/datetime_last_modified'} })
|
|
2077
|
+
traits: Optional[List[str]] = Field(None, description="""General subspecies's traits / features / attributes""", json_schema_extra = { "linkml_meta": {'alias': 'traits',
|
|
2078
|
+
'domain_of': ['Domain',
|
|
2079
|
+
'Regnum',
|
|
2080
|
+
'Phylum',
|
|
2081
|
+
'Classis',
|
|
2082
|
+
'Ordo',
|
|
2083
|
+
'Familia',
|
|
2084
|
+
'Genus',
|
|
2085
|
+
'Species',
|
|
2086
|
+
'Subspecies',
|
|
2087
|
+
'Variant',
|
|
2088
|
+
'Cultivar',
|
|
2089
|
+
'Organism',
|
|
2090
|
+
'Container'],
|
|
2091
|
+
'slot_uri': 'lara:subspecies/traits'} })
|
|
2092
|
+
|
|
2093
|
+
|
|
2094
|
+
class Variant(ConfiguredBaseModel):
|
|
2095
|
+
"""
|
|
2096
|
+
\" taxonomic Variant \"
|
|
2097
|
+
"""
|
|
2098
|
+
linkml_meta: ClassVar[LinkMLMeta] = LinkMLMeta({'class_uri': 'lara:lara_django_organisms/variant',
|
|
2099
|
+
'from_schema': 'https://w3id.org/lara/lara_django_organisms'})
|
|
2100
|
+
|
|
2101
|
+
variant_id: Optional[str] = Field(None, description="""Variant - primary key (UUID)""", json_schema_extra = { "linkml_meta": {'alias': 'variant_id',
|
|
2102
|
+
'domain_of': ['Variant'],
|
|
2103
|
+
'slot_uri': 'lara:variant/variant_id'} })
|
|
2104
|
+
name_display: str = Field(..., description="""human readable display name of the variant, can contain spaces""", json_schema_extra = { "linkml_meta": {'alias': 'name_display',
|
|
2105
|
+
'domain_of': ['ExtraData',
|
|
2106
|
+
'HabitatParameter',
|
|
2107
|
+
'Habitat',
|
|
2108
|
+
'Trait',
|
|
2109
|
+
'Domain',
|
|
2110
|
+
'Regnum',
|
|
2111
|
+
'Phylum',
|
|
2112
|
+
'Classis',
|
|
2113
|
+
'Ordo',
|
|
2114
|
+
'Familia',
|
|
2115
|
+
'Genus',
|
|
2116
|
+
'Species',
|
|
2117
|
+
'Subspecies',
|
|
2118
|
+
'Variant',
|
|
2119
|
+
'Cultivar',
|
|
2120
|
+
'Organism',
|
|
2121
|
+
'OrganismsSubset'],
|
|
2122
|
+
'slot_uri': 'lara:variant/name_display'} })
|
|
2123
|
+
name: Optional[str] = Field(None, description="""variant name, like """, json_schema_extra = { "linkml_meta": {'alias': 'name',
|
|
2124
|
+
'domain_of': ['ExtraData',
|
|
2125
|
+
'HabitatClass',
|
|
2126
|
+
'HabitatParameter',
|
|
2127
|
+
'Habitat',
|
|
2128
|
+
'Trait',
|
|
2129
|
+
'Domain',
|
|
2130
|
+
'Regnum',
|
|
2131
|
+
'Phylum',
|
|
2132
|
+
'Classis',
|
|
2133
|
+
'Ordo',
|
|
2134
|
+
'Familia',
|
|
2135
|
+
'Genus',
|
|
2136
|
+
'Species',
|
|
2137
|
+
'Subspecies',
|
|
2138
|
+
'Variant',
|
|
2139
|
+
'Cultivar',
|
|
2140
|
+
'Organism',
|
|
2141
|
+
'OrganismsSubset'],
|
|
2142
|
+
'slot_uri': 'lara:variant/name'} })
|
|
2143
|
+
name_common: Optional[str] = Field(None, description="""common variant name, like """, json_schema_extra = { "linkml_meta": {'alias': 'name_common',
|
|
2144
|
+
'domain_of': ['Phylum',
|
|
2145
|
+
'Classis',
|
|
2146
|
+
'Ordo',
|
|
2147
|
+
'Familia',
|
|
2148
|
+
'Genus',
|
|
2149
|
+
'Species',
|
|
2150
|
+
'Subspecies',
|
|
2151
|
+
'Variant',
|
|
2152
|
+
'Cultivar',
|
|
2153
|
+
'Organism'],
|
|
2154
|
+
'slot_uri': 'lara:variant/name_common'} })
|
|
2155
|
+
characteristics: Optional[str] = Field(None, description="""General characteristics of this variant, use 'traits' for specific traits.""", json_schema_extra = { "linkml_meta": {'alias': 'characteristics',
|
|
2156
|
+
'domain_of': ['Trait',
|
|
2157
|
+
'Domain',
|
|
2158
|
+
'Regnum',
|
|
2159
|
+
'Phylum',
|
|
2160
|
+
'Classis',
|
|
2161
|
+
'Ordo',
|
|
2162
|
+
'Familia',
|
|
2163
|
+
'Genus',
|
|
2164
|
+
'Species',
|
|
2165
|
+
'Subspecies',
|
|
2166
|
+
'Variant',
|
|
2167
|
+
'Cultivar',
|
|
2168
|
+
'Organism'],
|
|
2169
|
+
'slot_uri': 'lara:variant/characteristics'} })
|
|
2170
|
+
iri: Optional[str] = Field(None, description="""International Resource Identifier - IRI: is used for semantic representation """, json_schema_extra = { "linkml_meta": {'alias': 'iri',
|
|
2171
|
+
'domain_of': ['ExtraData',
|
|
2172
|
+
'HabitatClass',
|
|
2173
|
+
'HabitatParameter',
|
|
2174
|
+
'Habitat',
|
|
2175
|
+
'Trait',
|
|
2176
|
+
'Domain',
|
|
2177
|
+
'Regnum',
|
|
2178
|
+
'Phylum',
|
|
2179
|
+
'Classis',
|
|
2180
|
+
'Ordo',
|
|
2181
|
+
'Familia',
|
|
2182
|
+
'Genus',
|
|
2183
|
+
'Species',
|
|
2184
|
+
'Subspecies',
|
|
2185
|
+
'Variant',
|
|
2186
|
+
'Cultivar',
|
|
2187
|
+
'Organism'],
|
|
2188
|
+
'slot_uri': 'lara:variant/iri'} })
|
|
2189
|
+
description: Optional[str] = Field(None, description="""description of this variant""", json_schema_extra = { "linkml_meta": {'alias': 'description',
|
|
2190
|
+
'domain_of': ['ExtraData',
|
|
2191
|
+
'HabitatClass',
|
|
2192
|
+
'HabitatParameter',
|
|
2193
|
+
'Habitat',
|
|
2194
|
+
'Trait',
|
|
2195
|
+
'Domain',
|
|
2196
|
+
'Regnum',
|
|
2197
|
+
'Phylum',
|
|
2198
|
+
'Classis',
|
|
2199
|
+
'Ordo',
|
|
2200
|
+
'Familia',
|
|
2201
|
+
'Genus',
|
|
2202
|
+
'Species',
|
|
2203
|
+
'Subspecies',
|
|
2204
|
+
'Variant',
|
|
2205
|
+
'Cultivar',
|
|
2206
|
+
'Organism',
|
|
2207
|
+
'OrganismsSubset'],
|
|
2208
|
+
'slot_uri': 'lara:variant/description'} })
|
|
2209
|
+
datetime_last_modified: Optional[str] = Field(None, description="""date and time when habitat parameter data was last modified""", json_schema_extra = { "linkml_meta": {'alias': 'datetime_last_modified',
|
|
2210
|
+
'domain_of': ['ExtraData',
|
|
2211
|
+
'HabitatParameter',
|
|
2212
|
+
'Habitat',
|
|
2213
|
+
'Trait',
|
|
2214
|
+
'Domain',
|
|
2215
|
+
'Regnum',
|
|
2216
|
+
'Phylum',
|
|
2217
|
+
'Classis',
|
|
2218
|
+
'Ordo',
|
|
2219
|
+
'Familia',
|
|
2220
|
+
'Genus',
|
|
2221
|
+
'Species',
|
|
2222
|
+
'Subspecies',
|
|
2223
|
+
'Variant',
|
|
2224
|
+
'Cultivar',
|
|
2225
|
+
'Organism',
|
|
2226
|
+
'OrganismsSubset'],
|
|
2227
|
+
'slot_uri': 'lara:variant/datetime_last_modified'} })
|
|
2228
|
+
traits: Optional[List[str]] = Field(None, description="""General variant's traits / features / attributes""", json_schema_extra = { "linkml_meta": {'alias': 'traits',
|
|
2229
|
+
'domain_of': ['Domain',
|
|
2230
|
+
'Regnum',
|
|
2231
|
+
'Phylum',
|
|
2232
|
+
'Classis',
|
|
2233
|
+
'Ordo',
|
|
2234
|
+
'Familia',
|
|
2235
|
+
'Genus',
|
|
2236
|
+
'Species',
|
|
2237
|
+
'Subspecies',
|
|
2238
|
+
'Variant',
|
|
2239
|
+
'Cultivar',
|
|
2240
|
+
'Organism',
|
|
2241
|
+
'Container'],
|
|
2242
|
+
'slot_uri': 'lara:variant/traits'} })
|
|
2243
|
+
|
|
2244
|
+
|
|
2245
|
+
class Cultivar(ConfiguredBaseModel):
|
|
2246
|
+
"""
|
|
2247
|
+
\" taxonomic Cultivar / Plant variety originating from cultivation / cell line \"
|
|
2248
|
+
"""
|
|
2249
|
+
linkml_meta: ClassVar[LinkMLMeta] = LinkMLMeta({'class_uri': 'lara:lara_django_organisms/cultivar',
|
|
2250
|
+
'from_schema': 'https://w3id.org/lara/lara_django_organisms'})
|
|
2251
|
+
|
|
2252
|
+
cultivar_id: Optional[str] = Field(None, description="""Cultivar - primary key (UUID)""", json_schema_extra = { "linkml_meta": {'alias': 'cultivar_id',
|
|
2253
|
+
'domain_of': ['Cultivar'],
|
|
2254
|
+
'slot_uri': 'lara:cultivar/cultivar_id'} })
|
|
2255
|
+
name_display: str = Field(..., description="""human readable display name of the cultivar, can contain spaces""", json_schema_extra = { "linkml_meta": {'alias': 'name_display',
|
|
2256
|
+
'domain_of': ['ExtraData',
|
|
2257
|
+
'HabitatParameter',
|
|
2258
|
+
'Habitat',
|
|
2259
|
+
'Trait',
|
|
2260
|
+
'Domain',
|
|
2261
|
+
'Regnum',
|
|
2262
|
+
'Phylum',
|
|
2263
|
+
'Classis',
|
|
2264
|
+
'Ordo',
|
|
2265
|
+
'Familia',
|
|
2266
|
+
'Genus',
|
|
2267
|
+
'Species',
|
|
2268
|
+
'Subspecies',
|
|
2269
|
+
'Variant',
|
|
2270
|
+
'Cultivar',
|
|
2271
|
+
'Organism',
|
|
2272
|
+
'OrganismsSubset'],
|
|
2273
|
+
'slot_uri': 'lara:cultivar/name_display'} })
|
|
2274
|
+
name: Optional[str] = Field(None, description="""cultivar name, like """, json_schema_extra = { "linkml_meta": {'alias': 'name',
|
|
2275
|
+
'domain_of': ['ExtraData',
|
|
2276
|
+
'HabitatClass',
|
|
2277
|
+
'HabitatParameter',
|
|
2278
|
+
'Habitat',
|
|
2279
|
+
'Trait',
|
|
2280
|
+
'Domain',
|
|
2281
|
+
'Regnum',
|
|
2282
|
+
'Phylum',
|
|
2283
|
+
'Classis',
|
|
2284
|
+
'Ordo',
|
|
2285
|
+
'Familia',
|
|
2286
|
+
'Genus',
|
|
2287
|
+
'Species',
|
|
2288
|
+
'Subspecies',
|
|
2289
|
+
'Variant',
|
|
2290
|
+
'Cultivar',
|
|
2291
|
+
'Organism',
|
|
2292
|
+
'OrganismsSubset'],
|
|
2293
|
+
'slot_uri': 'lara:cultivar/name'} })
|
|
2294
|
+
name_common: Optional[str] = Field(None, description="""common cultivar name, like """, json_schema_extra = { "linkml_meta": {'alias': 'name_common',
|
|
2295
|
+
'domain_of': ['Phylum',
|
|
2296
|
+
'Classis',
|
|
2297
|
+
'Ordo',
|
|
2298
|
+
'Familia',
|
|
2299
|
+
'Genus',
|
|
2300
|
+
'Species',
|
|
2301
|
+
'Subspecies',
|
|
2302
|
+
'Variant',
|
|
2303
|
+
'Cultivar',
|
|
2304
|
+
'Organism'],
|
|
2305
|
+
'slot_uri': 'lara:cultivar/name_common'} })
|
|
2306
|
+
characteristics: Optional[str] = Field(None, description="""General characteristics of this cultivar, use 'traits' for specific traits.""", json_schema_extra = { "linkml_meta": {'alias': 'characteristics',
|
|
2307
|
+
'domain_of': ['Trait',
|
|
2308
|
+
'Domain',
|
|
2309
|
+
'Regnum',
|
|
2310
|
+
'Phylum',
|
|
2311
|
+
'Classis',
|
|
2312
|
+
'Ordo',
|
|
2313
|
+
'Familia',
|
|
2314
|
+
'Genus',
|
|
2315
|
+
'Species',
|
|
2316
|
+
'Subspecies',
|
|
2317
|
+
'Variant',
|
|
2318
|
+
'Cultivar',
|
|
2319
|
+
'Organism'],
|
|
2320
|
+
'slot_uri': 'lara:cultivar/characteristics'} })
|
|
2321
|
+
iri: Optional[str] = Field(None, description="""International Resource Identifier - IRI: is used for semantic representation """, json_schema_extra = { "linkml_meta": {'alias': 'iri',
|
|
2322
|
+
'domain_of': ['ExtraData',
|
|
2323
|
+
'HabitatClass',
|
|
2324
|
+
'HabitatParameter',
|
|
2325
|
+
'Habitat',
|
|
2326
|
+
'Trait',
|
|
2327
|
+
'Domain',
|
|
2328
|
+
'Regnum',
|
|
2329
|
+
'Phylum',
|
|
2330
|
+
'Classis',
|
|
2331
|
+
'Ordo',
|
|
2332
|
+
'Familia',
|
|
2333
|
+
'Genus',
|
|
2334
|
+
'Species',
|
|
2335
|
+
'Subspecies',
|
|
2336
|
+
'Variant',
|
|
2337
|
+
'Cultivar',
|
|
2338
|
+
'Organism'],
|
|
2339
|
+
'slot_uri': 'lara:cultivar/iri'} })
|
|
2340
|
+
description: Optional[str] = Field(None, description="""description of this cultivar""", json_schema_extra = { "linkml_meta": {'alias': 'description',
|
|
2341
|
+
'domain_of': ['ExtraData',
|
|
2342
|
+
'HabitatClass',
|
|
2343
|
+
'HabitatParameter',
|
|
2344
|
+
'Habitat',
|
|
2345
|
+
'Trait',
|
|
2346
|
+
'Domain',
|
|
2347
|
+
'Regnum',
|
|
2348
|
+
'Phylum',
|
|
2349
|
+
'Classis',
|
|
2350
|
+
'Ordo',
|
|
2351
|
+
'Familia',
|
|
2352
|
+
'Genus',
|
|
2353
|
+
'Species',
|
|
2354
|
+
'Subspecies',
|
|
2355
|
+
'Variant',
|
|
2356
|
+
'Cultivar',
|
|
2357
|
+
'Organism',
|
|
2358
|
+
'OrganismsSubset'],
|
|
2359
|
+
'slot_uri': 'lara:cultivar/description'} })
|
|
2360
|
+
datetime_last_modified: Optional[str] = Field(None, description="""date and time when habitat parameter data was last modified""", json_schema_extra = { "linkml_meta": {'alias': 'datetime_last_modified',
|
|
2361
|
+
'domain_of': ['ExtraData',
|
|
2362
|
+
'HabitatParameter',
|
|
2363
|
+
'Habitat',
|
|
2364
|
+
'Trait',
|
|
2365
|
+
'Domain',
|
|
2366
|
+
'Regnum',
|
|
2367
|
+
'Phylum',
|
|
2368
|
+
'Classis',
|
|
2369
|
+
'Ordo',
|
|
2370
|
+
'Familia',
|
|
2371
|
+
'Genus',
|
|
2372
|
+
'Species',
|
|
2373
|
+
'Subspecies',
|
|
2374
|
+
'Variant',
|
|
2375
|
+
'Cultivar',
|
|
2376
|
+
'Organism',
|
|
2377
|
+
'OrganismsSubset'],
|
|
2378
|
+
'slot_uri': 'lara:cultivar/datetime_last_modified'} })
|
|
2379
|
+
traits: Optional[List[str]] = Field(None, description="""General cultivar's traits / features / attributes""", json_schema_extra = { "linkml_meta": {'alias': 'traits',
|
|
2380
|
+
'domain_of': ['Domain',
|
|
2381
|
+
'Regnum',
|
|
2382
|
+
'Phylum',
|
|
2383
|
+
'Classis',
|
|
2384
|
+
'Ordo',
|
|
2385
|
+
'Familia',
|
|
2386
|
+
'Genus',
|
|
2387
|
+
'Species',
|
|
2388
|
+
'Subspecies',
|
|
2389
|
+
'Variant',
|
|
2390
|
+
'Cultivar',
|
|
2391
|
+
'Organism',
|
|
2392
|
+
'Container'],
|
|
2393
|
+
'slot_uri': 'lara:cultivar/traits'} })
|
|
2394
|
+
|
|
2395
|
+
|
|
2396
|
+
class Organism(ConfiguredBaseModel):
|
|
2397
|
+
"""
|
|
2398
|
+
\" organism / species / strain or cell line, details should be in the organism's ontology \"
|
|
2399
|
+
"""
|
|
2400
|
+
linkml_meta: ClassVar[LinkMLMeta] = LinkMLMeta({'class_uri': 'lara:lara_django_organisms/organism',
|
|
2401
|
+
'from_schema': 'https://w3id.org/lara/lara_django_organisms'})
|
|
2402
|
+
|
|
2403
|
+
organism_id: Optional[str] = Field(None, description="""Organism - primary key (UUID)""", json_schema_extra = { "linkml_meta": {'alias': 'organism_id',
|
|
2404
|
+
'domain_of': ['Organism'],
|
|
2405
|
+
'slot_uri': 'lara:organism/organism_id'} })
|
|
2406
|
+
name_display: str = Field(..., description="""human readable display name of the organism, can contain spaces""", json_schema_extra = { "linkml_meta": {'alias': 'name_display',
|
|
2407
|
+
'domain_of': ['ExtraData',
|
|
2408
|
+
'HabitatParameter',
|
|
2409
|
+
'Habitat',
|
|
2410
|
+
'Trait',
|
|
2411
|
+
'Domain',
|
|
2412
|
+
'Regnum',
|
|
2413
|
+
'Phylum',
|
|
2414
|
+
'Classis',
|
|
2415
|
+
'Ordo',
|
|
2416
|
+
'Familia',
|
|
2417
|
+
'Genus',
|
|
2418
|
+
'Species',
|
|
2419
|
+
'Subspecies',
|
|
2420
|
+
'Variant',
|
|
2421
|
+
'Cultivar',
|
|
2422
|
+
'Organism',
|
|
2423
|
+
'OrganismsSubset'],
|
|
2424
|
+
'slot_uri': 'lara:organism/name_display'} })
|
|
2425
|
+
name: Optional[str] = Field(None, description="""organism name for referencing in code, should not contain whitespaces""", json_schema_extra = { "linkml_meta": {'alias': 'name',
|
|
2426
|
+
'domain_of': ['ExtraData',
|
|
2427
|
+
'HabitatClass',
|
|
2428
|
+
'HabitatParameter',
|
|
2429
|
+
'Habitat',
|
|
2430
|
+
'Trait',
|
|
2431
|
+
'Domain',
|
|
2432
|
+
'Regnum',
|
|
2433
|
+
'Phylum',
|
|
2434
|
+
'Classis',
|
|
2435
|
+
'Ordo',
|
|
2436
|
+
'Familia',
|
|
2437
|
+
'Genus',
|
|
2438
|
+
'Species',
|
|
2439
|
+
'Subspecies',
|
|
2440
|
+
'Variant',
|
|
2441
|
+
'Cultivar',
|
|
2442
|
+
'Organism',
|
|
2443
|
+
'OrganismsSubset'],
|
|
2444
|
+
'slot_uri': 'lara:organism/name'} })
|
|
2445
|
+
name_common: Optional[str] = Field(None, description="""common organism name, like 'elephant' """, json_schema_extra = { "linkml_meta": {'alias': 'name_common',
|
|
2446
|
+
'domain_of': ['Phylum',
|
|
2447
|
+
'Classis',
|
|
2448
|
+
'Ordo',
|
|
2449
|
+
'Familia',
|
|
2450
|
+
'Genus',
|
|
2451
|
+
'Species',
|
|
2452
|
+
'Subspecies',
|
|
2453
|
+
'Variant',
|
|
2454
|
+
'Cultivar',
|
|
2455
|
+
'Organism'],
|
|
2456
|
+
'slot_uri': 'lara:organism/name_common'} })
|
|
2457
|
+
iri: Optional[str] = Field(None, description="""International Resource Identifier - IRI: is used for semantic representation """, json_schema_extra = { "linkml_meta": {'alias': 'iri',
|
|
2458
|
+
'domain_of': ['ExtraData',
|
|
2459
|
+
'HabitatClass',
|
|
2460
|
+
'HabitatParameter',
|
|
2461
|
+
'Habitat',
|
|
2462
|
+
'Trait',
|
|
2463
|
+
'Domain',
|
|
2464
|
+
'Regnum',
|
|
2465
|
+
'Phylum',
|
|
2466
|
+
'Classis',
|
|
2467
|
+
'Ordo',
|
|
2468
|
+
'Familia',
|
|
2469
|
+
'Genus',
|
|
2470
|
+
'Species',
|
|
2471
|
+
'Subspecies',
|
|
2472
|
+
'Variant',
|
|
2473
|
+
'Cultivar',
|
|
2474
|
+
'Organism'],
|
|
2475
|
+
'slot_uri': 'lara:organism/iri'} })
|
|
2476
|
+
pac_id: Optional[str] = Field(None, description="""Publicly Addressable Content IDentifier is a globally unique identifier that operates independently of a central registry.""", json_schema_extra = { "linkml_meta": {'alias': 'pac_id',
|
|
2477
|
+
'domain_of': ['Organism'],
|
|
2478
|
+
'slot_uri': 'lara:organism/pac_id'} })
|
|
2479
|
+
domain: Optional[str] = Field(None, description="""organism's domain name""", json_schema_extra = { "linkml_meta": {'alias': 'domain',
|
|
2480
|
+
'domain_of': ['Organism'],
|
|
2481
|
+
'slot_uri': 'lara:organism/domain'} })
|
|
2482
|
+
regnum: Optional[str] = Field(None, description="""organism's regnum name""", json_schema_extra = { "linkml_meta": {'alias': 'regnum',
|
|
2483
|
+
'domain_of': ['Organism'],
|
|
2484
|
+
'slot_uri': 'lara:organism/regnum'} })
|
|
2485
|
+
phylum: Optional[str] = Field(None, description="""organism's phylum name""", json_schema_extra = { "linkml_meta": {'alias': 'phylum',
|
|
2486
|
+
'domain_of': ['Organism'],
|
|
2487
|
+
'slot_uri': 'lara:organism/phylum'} })
|
|
2488
|
+
classis: Optional[str] = Field(None, description="""organism's classis (class) name""", json_schema_extra = { "linkml_meta": {'alias': 'classis',
|
|
2489
|
+
'domain_of': ['Organism'],
|
|
2490
|
+
'slot_uri': 'lara:organism/classis'} })
|
|
2491
|
+
ordo: Optional[str] = Field(None, description="""organism's ordo name""", json_schema_extra = { "linkml_meta": {'alias': 'ordo', 'domain_of': ['Organism'], 'slot_uri': 'lara:organism/ordo'} })
|
|
2492
|
+
familia: Optional[str] = Field(None, description="""organism's familia (family) name""", json_schema_extra = { "linkml_meta": {'alias': 'familia',
|
|
2493
|
+
'domain_of': ['Organism'],
|
|
2494
|
+
'slot_uri': 'lara:organism/familia'} })
|
|
2495
|
+
genus: Optional[str] = Field(None, description="""organism's genus name""", json_schema_extra = { "linkml_meta": {'alias': 'genus', 'domain_of': ['Organism'], 'slot_uri': 'lara:organism/genus'} })
|
|
2496
|
+
species: Optional[str] = Field(None, description="""organism's species name""", json_schema_extra = { "linkml_meta": {'alias': 'species',
|
|
2497
|
+
'domain_of': ['Organism'],
|
|
2498
|
+
'slot_uri': 'lara:organism/species'} })
|
|
2499
|
+
subspecies: Optional[str] = Field(None, description="""organism's subspecies name""", json_schema_extra = { "linkml_meta": {'alias': 'subspecies',
|
|
2500
|
+
'domain_of': ['Organism'],
|
|
2501
|
+
'slot_uri': 'lara:organism/subspecies'} })
|
|
2502
|
+
variant: Optional[str] = Field(None, description="""organism's varian name""", json_schema_extra = { "linkml_meta": {'alias': 'variant',
|
|
2503
|
+
'domain_of': ['Organism'],
|
|
2504
|
+
'slot_uri': 'lara:organism/variant'} })
|
|
2505
|
+
cultivar: Optional[str] = Field(None, description="""organism's cultivar name""", json_schema_extra = { "linkml_meta": {'alias': 'cultivar',
|
|
2506
|
+
'domain_of': ['Organism'],
|
|
2507
|
+
'slot_uri': 'lara:organism/cultivar'} })
|
|
2508
|
+
characteristics: Optional[str] = Field(None, description="""General characteristics of this variant, use 'traits' for specific traits.""", json_schema_extra = { "linkml_meta": {'alias': 'characteristics',
|
|
2509
|
+
'domain_of': ['Trait',
|
|
2510
|
+
'Domain',
|
|
2511
|
+
'Regnum',
|
|
2512
|
+
'Phylum',
|
|
2513
|
+
'Classis',
|
|
2514
|
+
'Ordo',
|
|
2515
|
+
'Familia',
|
|
2516
|
+
'Genus',
|
|
2517
|
+
'Species',
|
|
2518
|
+
'Subspecies',
|
|
2519
|
+
'Variant',
|
|
2520
|
+
'Cultivar',
|
|
2521
|
+
'Organism'],
|
|
2522
|
+
'slot_uri': 'lara:organism/characteristics'} })
|
|
2523
|
+
genome: Optional[str] = Field(None, description="""URL to organism's (reference) genome""", json_schema_extra = { "linkml_meta": {'alias': 'genome',
|
|
2524
|
+
'domain_of': ['Organism'],
|
|
2525
|
+
'slot_uri': 'lara:organism/genome'} })
|
|
2526
|
+
hybrid: bool = Field(..., description="""Hybrid - organism with mixed genetic material like mule, liger/tigon, plant hybrids.""", json_schema_extra = { "linkml_meta": {'alias': 'hybrid',
|
|
2527
|
+
'domain_of': ['Organism'],
|
|
2528
|
+
'slot_uri': 'lara:organism/hybrid'} })
|
|
2529
|
+
chimera: bool = Field(..., description="""Chimera - organisms with mixed cells from different species, like apple/pear tree.""", json_schema_extra = { "linkml_meta": {'alias': 'chimera',
|
|
2530
|
+
'domain_of': ['Organism'],
|
|
2531
|
+
'slot_uri': 'lara:organism/chimera'} })
|
|
2532
|
+
description: Optional[str] = Field(None, description="""description of the organism""", json_schema_extra = { "linkml_meta": {'alias': 'description',
|
|
2533
|
+
'domain_of': ['ExtraData',
|
|
2534
|
+
'HabitatClass',
|
|
2535
|
+
'HabitatParameter',
|
|
2536
|
+
'Habitat',
|
|
2537
|
+
'Trait',
|
|
2538
|
+
'Domain',
|
|
2539
|
+
'Regnum',
|
|
2540
|
+
'Phylum',
|
|
2541
|
+
'Classis',
|
|
2542
|
+
'Ordo',
|
|
2543
|
+
'Familia',
|
|
2544
|
+
'Genus',
|
|
2545
|
+
'Species',
|
|
2546
|
+
'Subspecies',
|
|
2547
|
+
'Variant',
|
|
2548
|
+
'Cultivar',
|
|
2549
|
+
'Organism',
|
|
2550
|
+
'OrganismsSubset'],
|
|
2551
|
+
'slot_uri': 'lara:organism/description'} })
|
|
2552
|
+
datetime_last_modified: Optional[str] = Field(None, description="""date and time when organism data was last modified""", json_schema_extra = { "linkml_meta": {'alias': 'datetime_last_modified',
|
|
2553
|
+
'domain_of': ['ExtraData',
|
|
2554
|
+
'HabitatParameter',
|
|
2555
|
+
'Habitat',
|
|
2556
|
+
'Trait',
|
|
2557
|
+
'Domain',
|
|
2558
|
+
'Regnum',
|
|
2559
|
+
'Phylum',
|
|
2560
|
+
'Classis',
|
|
2561
|
+
'Ordo',
|
|
2562
|
+
'Familia',
|
|
2563
|
+
'Genus',
|
|
2564
|
+
'Species',
|
|
2565
|
+
'Subspecies',
|
|
2566
|
+
'Variant',
|
|
2567
|
+
'Cultivar',
|
|
2568
|
+
'Organism',
|
|
2569
|
+
'OrganismsSubset'],
|
|
2570
|
+
'slot_uri': 'lara:organism/datetime_last_modified'} })
|
|
2571
|
+
habitats: Optional[List[str]] = Field(None, description="""general organism's habitats""", json_schema_extra = { "linkml_meta": {'alias': 'habitats',
|
|
2572
|
+
'domain_of': ['Organism', 'Container'],
|
|
2573
|
+
'slot_uri': 'lara:organism/habitats'} })
|
|
2574
|
+
organisms: Optional[List[str]] = Field(None, description="""organisms involved in hybrid or chimera""", json_schema_extra = { "linkml_meta": {'alias': 'organisms',
|
|
2575
|
+
'domain_of': ['Organism', 'OrganismsSubset', 'Container'],
|
|
2576
|
+
'slot_uri': 'lara:organism/organisms'} })
|
|
2577
|
+
traits: Optional[List[str]] = Field(None, description="""general organism's traits / features / attributes""", json_schema_extra = { "linkml_meta": {'alias': 'traits',
|
|
2578
|
+
'domain_of': ['Domain',
|
|
2579
|
+
'Regnum',
|
|
2580
|
+
'Phylum',
|
|
2581
|
+
'Classis',
|
|
2582
|
+
'Ordo',
|
|
2583
|
+
'Familia',
|
|
2584
|
+
'Genus',
|
|
2585
|
+
'Species',
|
|
2586
|
+
'Subspecies',
|
|
2587
|
+
'Variant',
|
|
2588
|
+
'Cultivar',
|
|
2589
|
+
'Organism',
|
|
2590
|
+
'Container'],
|
|
2591
|
+
'slot_uri': 'lara:organism/traits'} })
|
|
2592
|
+
data_extra: Optional[List[str]] = Field(None, description="""organism related extra """, json_schema_extra = { "linkml_meta": {'alias': 'data_extra',
|
|
2593
|
+
'domain_of': ['HabitatParameter', 'Organism'],
|
|
2594
|
+
'slot_uri': 'lara:organism/data_extra'} })
|
|
2595
|
+
tags: Optional[List[str]] = Field(None, description="""organism related tags""", json_schema_extra = { "linkml_meta": {'alias': 'tags',
|
|
2596
|
+
'domain_of': ['Organism', 'OrganismsSubset'],
|
|
2597
|
+
'slot_uri': 'lara:organism/tags'} })
|
|
2598
|
+
|
|
2599
|
+
|
|
2600
|
+
class OrganismsSubset(ConfiguredBaseModel):
|
|
2601
|
+
"""
|
|
2602
|
+
\" User or group defined subset of organisms \"
|
|
2603
|
+
"""
|
|
2604
|
+
linkml_meta: ClassVar[LinkMLMeta] = LinkMLMeta({'class_uri': 'lara:lara_django_organisms/organismssubset',
|
|
2605
|
+
'from_schema': 'https://w3id.org/lara/lara_django_organisms'})
|
|
2606
|
+
|
|
2607
|
+
namespace: Optional[str] = Field(None, description="""namespace of the subset""", json_schema_extra = { "linkml_meta": {'alias': 'namespace',
|
|
2608
|
+
'domain_of': ['ExtraData', 'OrganismsSubset'],
|
|
2609
|
+
'slot_uri': 'lara:organismssubset/namespace'} })
|
|
2610
|
+
name_display: Optional[str] = Field(None, description="""display name of the subset""", json_schema_extra = { "linkml_meta": {'alias': 'name_display',
|
|
2611
|
+
'domain_of': ['ExtraData',
|
|
2612
|
+
'HabitatParameter',
|
|
2613
|
+
'Habitat',
|
|
2614
|
+
'Trait',
|
|
2615
|
+
'Domain',
|
|
2616
|
+
'Regnum',
|
|
2617
|
+
'Phylum',
|
|
2618
|
+
'Classis',
|
|
2619
|
+
'Ordo',
|
|
2620
|
+
'Familia',
|
|
2621
|
+
'Genus',
|
|
2622
|
+
'Species',
|
|
2623
|
+
'Subspecies',
|
|
2624
|
+
'Variant',
|
|
2625
|
+
'Cultivar',
|
|
2626
|
+
'Organism',
|
|
2627
|
+
'OrganismsSubset'],
|
|
2628
|
+
'slot_uri': 'lara:organismssubset/name_display'} })
|
|
2629
|
+
name: Optional[str] = Field(None, description="""name of the subset""", json_schema_extra = { "linkml_meta": {'alias': 'name',
|
|
2630
|
+
'domain_of': ['ExtraData',
|
|
2631
|
+
'HabitatClass',
|
|
2632
|
+
'HabitatParameter',
|
|
2633
|
+
'Habitat',
|
|
2634
|
+
'Trait',
|
|
2635
|
+
'Domain',
|
|
2636
|
+
'Regnum',
|
|
2637
|
+
'Phylum',
|
|
2638
|
+
'Classis',
|
|
2639
|
+
'Ordo',
|
|
2640
|
+
'Familia',
|
|
2641
|
+
'Genus',
|
|
2642
|
+
'Species',
|
|
2643
|
+
'Subspecies',
|
|
2644
|
+
'Variant',
|
|
2645
|
+
'Cultivar',
|
|
2646
|
+
'Organism',
|
|
2647
|
+
'OrganismsSubset'],
|
|
2648
|
+
'slot_uri': 'lara:organismssubset/name'} })
|
|
2649
|
+
user: Optional[str] = Field(None, description="""user who created the subset""", json_schema_extra = { "linkml_meta": {'alias': 'user',
|
|
2650
|
+
'domain_of': ['OrganismsSubset'],
|
|
2651
|
+
'slot_uri': 'lara:organismssubset/user'} })
|
|
2652
|
+
group: Optional[str] = Field(None, description="""group who created the subset""", json_schema_extra = { "linkml_meta": {'alias': 'group',
|
|
2653
|
+
'domain_of': ['OrganismsSubset'],
|
|
2654
|
+
'slot_uri': 'lara:organismssubset/group'} })
|
|
2655
|
+
description: Optional[str] = Field(None, description="""description of the subset""", json_schema_extra = { "linkml_meta": {'alias': 'description',
|
|
2656
|
+
'domain_of': ['ExtraData',
|
|
2657
|
+
'HabitatClass',
|
|
2658
|
+
'HabitatParameter',
|
|
2659
|
+
'Habitat',
|
|
2660
|
+
'Trait',
|
|
2661
|
+
'Domain',
|
|
2662
|
+
'Regnum',
|
|
2663
|
+
'Phylum',
|
|
2664
|
+
'Classis',
|
|
2665
|
+
'Ordo',
|
|
2666
|
+
'Familia',
|
|
2667
|
+
'Genus',
|
|
2668
|
+
'Species',
|
|
2669
|
+
'Subspecies',
|
|
2670
|
+
'Variant',
|
|
2671
|
+
'Cultivar',
|
|
2672
|
+
'Organism',
|
|
2673
|
+
'OrganismsSubset'],
|
|
2674
|
+
'slot_uri': 'lara:organismssubset/description'} })
|
|
2675
|
+
datetime_last_modified: Optional[str] = Field(None, description="""datetime of last modification of the selection""", json_schema_extra = { "linkml_meta": {'alias': 'datetime_last_modified',
|
|
2676
|
+
'domain_of': ['ExtraData',
|
|
2677
|
+
'HabitatParameter',
|
|
2678
|
+
'Habitat',
|
|
2679
|
+
'Trait',
|
|
2680
|
+
'Domain',
|
|
2681
|
+
'Regnum',
|
|
2682
|
+
'Phylum',
|
|
2683
|
+
'Classis',
|
|
2684
|
+
'Ordo',
|
|
2685
|
+
'Familia',
|
|
2686
|
+
'Genus',
|
|
2687
|
+
'Species',
|
|
2688
|
+
'Subspecies',
|
|
2689
|
+
'Variant',
|
|
2690
|
+
'Cultivar',
|
|
2691
|
+
'Organism',
|
|
2692
|
+
'OrganismsSubset'],
|
|
2693
|
+
'slot_uri': 'lara:organismssubset/datetime_last_modified'} })
|
|
2694
|
+
organismssubset_id: Optional[str] = Field(None, description="""OrganismsSubset - primary key (UUID)""", json_schema_extra = { "linkml_meta": {'alias': 'organismssubset_id',
|
|
2695
|
+
'domain_of': ['OrganismsSubset'],
|
|
2696
|
+
'slot_uri': 'lara:organismssubset/organismssubset_id'} })
|
|
2697
|
+
tags: Optional[List[str]] = Field(None, description="""tags""", json_schema_extra = { "linkml_meta": {'alias': 'tags',
|
|
2698
|
+
'domain_of': ['Organism', 'OrganismsSubset'],
|
|
2699
|
+
'slot_uri': 'lara:organismssubset/tags'} })
|
|
2700
|
+
organisms: Optional[List[str]] = Field(None, description="""organisms in this subset""", json_schema_extra = { "linkml_meta": {'alias': 'organisms',
|
|
2701
|
+
'domain_of': ['Organism', 'OrganismsSubset', 'Container'],
|
|
2702
|
+
'slot_uri': 'lara:organismssubset/organisms'} })
|
|
2703
|
+
|
|
2704
|
+
|
|
2705
|
+
class OrderedOrganismsOrganismsSubset(ConfiguredBaseModel):
|
|
2706
|
+
"""
|
|
2707
|
+
\" Through model for the many-to-many relationship between OrganismsSubset and Organism.
|
|
2708
|
+
This class can be used to store the order of organisms in a subset
|
|
2709
|
+
\"
|
|
2710
|
+
"""
|
|
2711
|
+
linkml_meta: ClassVar[LinkMLMeta] = LinkMLMeta({'class_uri': 'lara:lara_django_organisms/orderedorganismsorganismssubset',
|
|
2712
|
+
'from_schema': 'https://w3id.org/lara/lara_django_organisms'})
|
|
2713
|
+
|
|
2714
|
+
orderedorganismsorganismssubset_id: Optional[str] = Field(None, description="""OrderedOrganismsOrganismsSubset - primary key (UUID)""", json_schema_extra = { "linkml_meta": {'alias': 'orderedorganismsorganismssubset_id',
|
|
2715
|
+
'domain_of': ['OrderedOrganismsOrganismsSubset'],
|
|
2716
|
+
'slot_uri': 'lara:orderedorganismsorganismssubset/orderedorganismsorganismssubset_id'} })
|
|
2717
|
+
organism: str = Field(..., description="""organism in the subset""", json_schema_extra = { "linkml_meta": {'alias': 'organism',
|
|
2718
|
+
'domain_of': ['OrderedOrganismsOrganismsSubset'],
|
|
2719
|
+
'slot_uri': 'lara:orderedorganismsorganismssubset/organism'} })
|
|
2720
|
+
organisms_subset: str = Field(..., description="""subset of organisms""", json_schema_extra = { "linkml_meta": {'alias': 'organisms_subset',
|
|
2721
|
+
'domain_of': ['OrderedOrganismsOrganismsSubset'],
|
|
2722
|
+
'slot_uri': 'lara:orderedorganismsorganismssubset/organisms_subset'} })
|
|
2723
|
+
order: int = Field(..., description="""order of organism in subset""", json_schema_extra = { "linkml_meta": {'alias': 'order',
|
|
2724
|
+
'domain_of': ['OrderedOrganismsOrganismsSubset'],
|
|
2725
|
+
'slot_uri': 'lara:orderedorganismsorganismssubset/order'} })
|
|
2726
|
+
|
|
2727
|
+
|
|
2728
|
+
class Container(ConfiguredBaseModel):
|
|
2729
|
+
linkml_meta: ClassVar[LinkMLMeta] = LinkMLMeta({'from_schema': 'https://w3id.org/lara/lara_django_organisms',
|
|
2730
|
+
'tree_root': True})
|
|
2731
|
+
|
|
2732
|
+
extradatas: Optional[List[ExtraData]] = Field(None, json_schema_extra = { "linkml_meta": {'alias': 'extradatas', 'domain_of': ['Container']} })
|
|
2733
|
+
habitatclasss: Optional[List[HabitatClass]] = Field(None, json_schema_extra = { "linkml_meta": {'alias': 'habitatclasss', 'domain_of': ['Container']} })
|
|
2734
|
+
habitatparameters: Optional[List[HabitatParameter]] = Field(None, json_schema_extra = { "linkml_meta": {'alias': 'habitatparameters', 'domain_of': ['Container']} })
|
|
2735
|
+
habitats: Optional[List[Habitat]] = Field(None, json_schema_extra = { "linkml_meta": {'alias': 'habitats', 'domain_of': ['Organism', 'Container']} })
|
|
2736
|
+
traits: Optional[List[Trait]] = Field(None, json_schema_extra = { "linkml_meta": {'alias': 'traits',
|
|
2737
|
+
'domain_of': ['Domain',
|
|
2738
|
+
'Regnum',
|
|
2739
|
+
'Phylum',
|
|
2740
|
+
'Classis',
|
|
2741
|
+
'Ordo',
|
|
2742
|
+
'Familia',
|
|
2743
|
+
'Genus',
|
|
2744
|
+
'Species',
|
|
2745
|
+
'Subspecies',
|
|
2746
|
+
'Variant',
|
|
2747
|
+
'Cultivar',
|
|
2748
|
+
'Organism',
|
|
2749
|
+
'Container']} })
|
|
2750
|
+
domains: Optional[List[Domain]] = Field(None, json_schema_extra = { "linkml_meta": {'alias': 'domains', 'domain_of': ['Container']} })
|
|
2751
|
+
regnums: Optional[List[Regnum]] = Field(None, json_schema_extra = { "linkml_meta": {'alias': 'regnums', 'domain_of': ['Container']} })
|
|
2752
|
+
phylums: Optional[List[Phylum]] = Field(None, json_schema_extra = { "linkml_meta": {'alias': 'phylums', 'domain_of': ['Container']} })
|
|
2753
|
+
classiss: Optional[List[Classis]] = Field(None, json_schema_extra = { "linkml_meta": {'alias': 'classiss', 'domain_of': ['Container']} })
|
|
2754
|
+
ordos: Optional[List[Ordo]] = Field(None, json_schema_extra = { "linkml_meta": {'alias': 'ordos', 'domain_of': ['Container']} })
|
|
2755
|
+
familias: Optional[List[Familia]] = Field(None, json_schema_extra = { "linkml_meta": {'alias': 'familias', 'domain_of': ['Container']} })
|
|
2756
|
+
genuss: Optional[List[Genus]] = Field(None, json_schema_extra = { "linkml_meta": {'alias': 'genuss', 'domain_of': ['Container']} })
|
|
2757
|
+
speciess: Optional[List[Species]] = Field(None, json_schema_extra = { "linkml_meta": {'alias': 'speciess', 'domain_of': ['Container']} })
|
|
2758
|
+
subspeciess: Optional[List[Subspecies]] = Field(None, json_schema_extra = { "linkml_meta": {'alias': 'subspeciess', 'domain_of': ['Container']} })
|
|
2759
|
+
variants: Optional[List[Variant]] = Field(None, json_schema_extra = { "linkml_meta": {'alias': 'variants', 'domain_of': ['Container']} })
|
|
2760
|
+
cultivars: Optional[List[Cultivar]] = Field(None, json_schema_extra = { "linkml_meta": {'alias': 'cultivars', 'domain_of': ['Container']} })
|
|
2761
|
+
organisms: Optional[List[Organism]] = Field(None, json_schema_extra = { "linkml_meta": {'alias': 'organisms',
|
|
2762
|
+
'domain_of': ['Organism', 'OrganismsSubset', 'Container']} })
|
|
2763
|
+
organismssubsets: Optional[List[OrganismsSubset]] = Field(None, json_schema_extra = { "linkml_meta": {'alias': 'organismssubsets', 'domain_of': ['Container']} })
|
|
2764
|
+
orderedorganismsorganismssubsets: Optional[List[OrderedOrganismsOrganismsSubset]] = Field(None, json_schema_extra = { "linkml_meta": {'alias': 'orderedorganismsorganismssubsets', 'domain_of': ['Container']} })
|
|
2765
|
+
|
|
2766
|
+
|
|
2767
|
+
# Model rebuild
|
|
2768
|
+
# see https://pydantic-docs.helpmanual.io/usage/models/#rebuilding-a-model
|
|
2769
|
+
Namespace.model_rebuild()
|
|
2770
|
+
MediaType.model_rebuild()
|
|
2771
|
+
PhysicalUnit.model_rebuild()
|
|
2772
|
+
DataType.model_rebuild()
|
|
2773
|
+
Entity.model_rebuild()
|
|
2774
|
+
Group.model_rebuild()
|
|
2775
|
+
Tag.model_rebuild()
|
|
2776
|
+
ExtraData.model_rebuild()
|
|
2777
|
+
HabitatClass.model_rebuild()
|
|
2778
|
+
HabitatParameter.model_rebuild()
|
|
2779
|
+
Habitat.model_rebuild()
|
|
2780
|
+
Trait.model_rebuild()
|
|
2781
|
+
Domain.model_rebuild()
|
|
2782
|
+
Regnum.model_rebuild()
|
|
2783
|
+
Phylum.model_rebuild()
|
|
2784
|
+
Classis.model_rebuild()
|
|
2785
|
+
Ordo.model_rebuild()
|
|
2786
|
+
Familia.model_rebuild()
|
|
2787
|
+
Genus.model_rebuild()
|
|
2788
|
+
Species.model_rebuild()
|
|
2789
|
+
Subspecies.model_rebuild()
|
|
2790
|
+
Variant.model_rebuild()
|
|
2791
|
+
Cultivar.model_rebuild()
|
|
2792
|
+
Organism.model_rebuild()
|
|
2793
|
+
OrganismsSubset.model_rebuild()
|
|
2794
|
+
OrderedOrganismsOrganismsSubset.model_rebuild()
|
|
2795
|
+
Container.model_rebuild()
|
|
2796
|
+
|