Class: FieldResearchSiteFlat

A site, outside of a laboratory, from which biosamples may be collected. Flattened tabular form of 'FieldResearchSite'. Attributes are the union of base-class slots and slots from concrete subclasses of 'FieldResearchSite' that may appear via the 'type' field.

URI: https://w3id.org/nmdc/nmdc-schema-flattened/FieldResearchSiteFlat

 classDiagram
    class FieldResearchSiteFlat
    click FieldResearchSiteFlat href "../FieldResearchSiteFlat/"
      FieldResearchSiteFlat : alternative_identifiers

      FieldResearchSiteFlat : cur_vegetation

      FieldResearchSiteFlat : description

      FieldResearchSiteFlat : elev

      FieldResearchSiteFlat : geo_loc_name

      FieldResearchSiteFlat : habitat

      FieldResearchSiteFlat : id

      FieldResearchSiteFlat : lat_lon_has_raw_value

      FieldResearchSiteFlat : lat_lon_latitude

      FieldResearchSiteFlat : lat_lon_longitude

      FieldResearchSiteFlat : local_class

      FieldResearchSiteFlat : name

      FieldResearchSiteFlat : part_of

      FieldResearchSiteFlat : soil_type

      FieldResearchSiteFlat : type

Slots

Name	Cardinality and Range	Description	Inheritance
alternative_identifiers	* Uriorcurie	A list of alternative identifiers for the entity	direct
cur_vegetation	0..1 String	Vegetation classification from one or more standard classification systems, o...	direct
description	0..1 String	a human-readable description of a thing	direct
elev	0..1 Float	Elevation of the sampling site is its height above a fixed reference point, m...	direct
geo_loc_name	0..1 String	The geographical origin of the sample as defined by the country or sea name f...	direct
habitat	0..1 String		direct
id	1 Uriorcurie	A unique identifier for a thing	direct
lat_lon_has_raw_value	0..1 String	The raw value for a geolocation should follow {latitude} {longitude} Flattene...	direct
lat_lon_latitude	0..1 DecimalDegree	The latitude of a location	direct
lat_lon_longitude	0..1 DecimalDegree	The longitude of a location	direct
local_class	0..1 String	Soil classification based on local soil classification system String projecte...	direct
name	0..1 String	A human readable label for an entity	direct
part_of	* String	Links a resource to another resource that either logically or physically incl...	direct
soil_type	0..1 String	Description of the soil type or classification	direct
type	1 Uriorcurie	the class_uri of the class that has been instantiated	direct

Identifier and Mapping Information

Annotations

property	value
table_name	field_research_site_set
source_class	FieldResearchSite

Schema Source

from schema: https://w3id.org/nmdc/nmdc-schema-flattened

Mappings

Mapping Type	Mapped Value
self	https://w3id.org/nmdc/nmdc-schema-flattened/FieldResearchSiteFlat
native	https://w3id.org/nmdc/nmdc-schema-flattened/FieldResearchSiteFlat

LinkML Source

Direct

name: FieldResearchSiteFlat
annotations:
  table_name:
    tag: table_name
    value: field_research_site_set
  source_class:
    tag: source_class
    value: FieldResearchSite
description: A site, outside of a laboratory, from which biosamples may be collected.
  Flattened tabular form of 'FieldResearchSite'. Attributes are the union of base-class
  slots and slots from concrete subclasses of 'FieldResearchSite' that may appear
  via the 'type' field.
from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
attributes:
  alternative_identifiers:
    name: alternative_identifiers
    description: A list of alternative identifiers for the entity.
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    domain_of:
    - BiosampleFlat
    - CalibrationInformationFlat
    - CollectingBiosamplesFromSiteFlat
    - ConfigurationFlat
    - DataGenerationFlat
    - DataObjectFlat
    - FieldResearchSiteFlat
    - InstrumentFlat
    - ManifestFlat
    - MaterialProcessingFlat
    - OrganismSampleFlat
    - OrganismFlat
    - organism_set_classified_as
    - ProcessedSampleFlat
    - StorageProcessFlat
    - StudyFlat
    - WorkflowExecutionFlat
    - workflow_execution_set_has_metabolite_identifications
    range: uriorcurie
    multivalued: true
  cur_vegetation:
    name: cur_vegetation
    description: Vegetation classification from one or more standard classification
      systems, or agricultural crop String projected from 'cur_vegetation.has_raw_value'
      (TextValue).
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    domain_of:
    - BiosampleFlat
    - FieldResearchSiteFlat
    range: string
    required: false
    multivalued: false
  description:
    name: description
    description: a human-readable description of a thing
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    domain_of:
    - BiosampleFlat
    - CalibrationInformationFlat
    - CollectingBiosamplesFromSiteFlat
    - ConfigurationFlat
    - DataGenerationFlat
    - DataObjectFlat
    - FieldResearchSiteFlat
    - InstrumentFlat
    - ManifestFlat
    - MaterialProcessingFlat
    - OrganismSampleFlat
    - OrganismFlat
    - organism_set_classified_as
    - ProcessedSampleFlat
    - StorageProcessFlat
    - StudyFlat
    - study_set_protocol_link
    - study_set_study_image
    - WorkflowExecutionFlat
    range: string
    multivalued: false
  elev:
    name: elev
    description: Elevation of the sampling site is its height above a fixed reference
      point, most commonly the mean sea level. Elevation is mainly used when referring
      to points on the earth's surface, while altitude is used for points above the
      surface, such as an aircraft in flight or a spacecraft in orbit
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    domain_of:
    - BiosampleFlat
    - FieldResearchSiteFlat
    range: float
    multivalued: false
  geo_loc_name:
    name: geo_loc_name
    description: The geographical origin of the sample as defined by the country or
      sea name followed by specific region name. Country or sea names should be chosen
      from the INSDC country list (http://insdc.org/country.html), or the GAZ ontology
      (http://purl.bioontology.org/ontology/GAZ) String projected from 'geo_loc_name.has_raw_value'
      (TextValue).
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    domain_of:
    - BiosampleFlat
    - FieldResearchSiteFlat
    range: string
    required: false
    multivalued: false
  habitat:
    name: habitat
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    domain_of:
    - BiosampleFlat
    - FieldResearchSiteFlat
    range: string
    multivalued: false
  id:
    name: id
    description: A unique identifier for a thing. Must be either a CURIE shorthand
      for a URI or a complete URI
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    identifier: true
    domain_of:
    - BiosampleFlat
    - CalibrationInformationFlat
    - CollectingBiosamplesFromSiteFlat
    - ConfigurationFlat
    - DataGenerationFlat
    - DataObjectFlat
    - FieldResearchSiteFlat
    - InstrumentFlat
    - ManifestFlat
    - MaterialProcessingFlat
    - OrganismSampleFlat
    - OrganismFlat
    - organism_set_classified_as
    - ProcessedSampleFlat
    - StorageProcessFlat
    - StudyFlat
    - WorkflowExecutionFlat
    range: uriorcurie
    required: true
    multivalued: false
  lat_lon_has_raw_value:
    name: lat_lon_has_raw_value
    description: The raw value for a geolocation should follow {latitude} {longitude}
      Flattened from nested slot 'lat_lon.has_raw_value'.
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    domain_of:
    - BiosampleFlat
    - FieldResearchSiteFlat
    range: string
    required: false
    multivalued: false
  lat_lon_latitude:
    name: lat_lon_latitude
    description: The latitude of a location. Flattened from nested slot 'lat_lon.latitude'.
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    domain_of:
    - BiosampleFlat
    - FieldResearchSiteFlat
    range: decimal_degree
    required: false
    multivalued: false
  lat_lon_longitude:
    name: lat_lon_longitude
    description: The longitude of a location. Flattened from nested slot 'lat_lon.longitude'.
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    domain_of:
    - BiosampleFlat
    - FieldResearchSiteFlat
    range: decimal_degree
    required: false
    multivalued: false
  local_class:
    name: local_class
    description: Soil classification based on local soil classification system String
      projected from 'local_class.has_raw_value' (TextValue).
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    domain_of:
    - BiosampleFlat
    - FieldResearchSiteFlat
    range: string
    required: false
    multivalued: false
  name:
    name: name
    description: A human readable label for an entity
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    domain_of:
    - BiosampleFlat
    - CalibrationInformationFlat
    - CollectingBiosamplesFromSiteFlat
    - ConfigurationFlat
    - DataGenerationFlat
    - DataObjectFlat
    - FieldResearchSiteFlat
    - InstrumentFlat
    - ManifestFlat
    - MaterialProcessingFlat
    - OrganismSampleFlat
    - OrganismFlat
    - organism_set_classified_as
    - ProcessedSampleFlat
    - StorageProcessFlat
    - StudyFlat
    - study_set_protocol_link
    - WorkflowExecutionFlat
    range: string
    multivalued: false
  part_of:
    name: part_of
    description: Links a resource to another resource that either logically or physically
      includes it. Reference by identifier; original range was class 'FieldResearchSite'.
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    rank: 1000
    domain_of:
    - FieldResearchSiteFlat
    - field_research_site_set_part_of
    - StudyFlat
    - study_set_part_of
    range: string
    multivalued: true
  soil_type:
    name: soil_type
    description: Description of the soil type or classification. This field accepts
      terms under soil (http://purl.obolibrary.org/obo/ENVO_00001998).  Multiple terms
      can be separated by pipes String projected from 'soil_type.has_raw_value' (TextValue).
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    domain_of:
    - BiosampleFlat
    - FieldResearchSiteFlat
    range: string
    required: false
    multivalued: false
  type:
    name: type
    description: the class_uri of the class that has been instantiated
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    domain_of:
    - BiosampleFlat
    - biosample_set_chem_administration
    - biosample_set_misc_param
    - biosample_set_organism_count
    - CalibrationInformationFlat
    - CollectingBiosamplesFromSiteFlat
    - collecting_biosamples_from_site_set_has_failure_categorization
    - ConfigurationFlat
    - configuration_set_ordered_mobile_phases
    - configuration_set_ordered_mobile_phases_substances_used
    - DataGenerationFlat
    - data_generation_set_has_credit_associations
    - data_generation_set_has_failure_categorization
    - DataObjectFlat
    - FieldResearchSiteFlat
    - FunctionalAnnotationAggMemberFlat
    - FunctionalAnnotationFlat
    - GenomeFeatureFlat
    - InstrumentFlat
    - ManifestFlat
    - MaterialProcessingFlat
    - material_processing_set_has_failure_categorization
    - material_processing_set_ordered_mobile_phases
    - material_processing_set_ordered_mobile_phases_substances_used
    - material_processing_set_substances_used
    - OrganismSampleFlat
    - OrganismFlat
    - organism_set_classified_as
    - ProcessedSampleFlat
    - StorageProcessFlat
    - storage_process_set_has_failure_categorization
    - storage_process_set_substances_used
    - StudyFlat
    - study_set_associated_dois
    - study_set_has_credit_associations
    - study_set_protocol_link
    - study_set_study_image
    - WorkflowExecutionFlat
    - workflow_execution_set_has_failure_categorization
    - workflow_execution_set_has_metabolite_identifications
    - workflow_execution_set_mags_list
    range: uriorcurie
    required: true
    multivalued: false

Induced

name: FieldResearchSiteFlat
annotations:
  table_name:
    tag: table_name
    value: field_research_site_set
  source_class:
    tag: source_class
    value: FieldResearchSite
description: A site, outside of a laboratory, from which biosamples may be collected.
  Flattened tabular form of 'FieldResearchSite'. Attributes are the union of base-class
  slots and slots from concrete subclasses of 'FieldResearchSite' that may appear
  via the 'type' field.
from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
attributes:
  alternative_identifiers:
    name: alternative_identifiers
    description: A list of alternative identifiers for the entity.
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    owner: FieldResearchSiteFlat
    domain_of:
    - BiosampleFlat
    - CalibrationInformationFlat
    - CollectingBiosamplesFromSiteFlat
    - ConfigurationFlat
    - DataGenerationFlat
    - DataObjectFlat
    - FieldResearchSiteFlat
    - InstrumentFlat
    - ManifestFlat
    - MaterialProcessingFlat
    - OrganismSampleFlat
    - OrganismFlat
    - organism_set_classified_as
    - ProcessedSampleFlat
    - StorageProcessFlat
    - StudyFlat
    - WorkflowExecutionFlat
    - workflow_execution_set_has_metabolite_identifications
    range: uriorcurie
    multivalued: true
  cur_vegetation:
    name: cur_vegetation
    description: Vegetation classification from one or more standard classification
      systems, or agricultural crop String projected from 'cur_vegetation.has_raw_value'
      (TextValue).
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    owner: FieldResearchSiteFlat
    domain_of:
    - BiosampleFlat
    - FieldResearchSiteFlat
    range: string
    required: false
    multivalued: false
  description:
    name: description
    description: a human-readable description of a thing
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    owner: FieldResearchSiteFlat
    domain_of:
    - BiosampleFlat
    - CalibrationInformationFlat
    - CollectingBiosamplesFromSiteFlat
    - ConfigurationFlat
    - DataGenerationFlat
    - DataObjectFlat
    - FieldResearchSiteFlat
    - InstrumentFlat
    - ManifestFlat
    - MaterialProcessingFlat
    - OrganismSampleFlat
    - OrganismFlat
    - organism_set_classified_as
    - ProcessedSampleFlat
    - StorageProcessFlat
    - StudyFlat
    - study_set_protocol_link
    - study_set_study_image
    - WorkflowExecutionFlat
    range: string
    multivalued: false
  elev:
    name: elev
    description: Elevation of the sampling site is its height above a fixed reference
      point, most commonly the mean sea level. Elevation is mainly used when referring
      to points on the earth's surface, while altitude is used for points above the
      surface, such as an aircraft in flight or a spacecraft in orbit
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    owner: FieldResearchSiteFlat
    domain_of:
    - BiosampleFlat
    - FieldResearchSiteFlat
    range: float
    multivalued: false
  geo_loc_name:
    name: geo_loc_name
    description: The geographical origin of the sample as defined by the country or
      sea name followed by specific region name. Country or sea names should be chosen
      from the INSDC country list (http://insdc.org/country.html), or the GAZ ontology
      (http://purl.bioontology.org/ontology/GAZ) String projected from 'geo_loc_name.has_raw_value'
      (TextValue).
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    owner: FieldResearchSiteFlat
    domain_of:
    - BiosampleFlat
    - FieldResearchSiteFlat
    range: string
    required: false
    multivalued: false
  habitat:
    name: habitat
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    owner: FieldResearchSiteFlat
    domain_of:
    - BiosampleFlat
    - FieldResearchSiteFlat
    range: string
    multivalued: false
  id:
    name: id
    description: A unique identifier for a thing. Must be either a CURIE shorthand
      for a URI or a complete URI
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    identifier: true
    owner: FieldResearchSiteFlat
    domain_of:
    - BiosampleFlat
    - CalibrationInformationFlat
    - CollectingBiosamplesFromSiteFlat
    - ConfigurationFlat
    - DataGenerationFlat
    - DataObjectFlat
    - FieldResearchSiteFlat
    - InstrumentFlat
    - ManifestFlat
    - MaterialProcessingFlat
    - OrganismSampleFlat
    - OrganismFlat
    - organism_set_classified_as
    - ProcessedSampleFlat
    - StorageProcessFlat
    - StudyFlat
    - WorkflowExecutionFlat
    range: uriorcurie
    required: true
    multivalued: false
  lat_lon_has_raw_value:
    name: lat_lon_has_raw_value
    description: The raw value for a geolocation should follow {latitude} {longitude}
      Flattened from nested slot 'lat_lon.has_raw_value'.
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    owner: FieldResearchSiteFlat
    domain_of:
    - BiosampleFlat
    - FieldResearchSiteFlat
    range: string
    required: false
    multivalued: false
  lat_lon_latitude:
    name: lat_lon_latitude
    description: The latitude of a location. Flattened from nested slot 'lat_lon.latitude'.
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    owner: FieldResearchSiteFlat
    domain_of:
    - BiosampleFlat
    - FieldResearchSiteFlat
    range: decimal_degree
    required: false
    multivalued: false
  lat_lon_longitude:
    name: lat_lon_longitude
    description: The longitude of a location. Flattened from nested slot 'lat_lon.longitude'.
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    owner: FieldResearchSiteFlat
    domain_of:
    - BiosampleFlat
    - FieldResearchSiteFlat
    range: decimal_degree
    required: false
    multivalued: false
  local_class:
    name: local_class
    description: Soil classification based on local soil classification system String
      projected from 'local_class.has_raw_value' (TextValue).
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    owner: FieldResearchSiteFlat
    domain_of:
    - BiosampleFlat
    - FieldResearchSiteFlat
    range: string
    required: false
    multivalued: false
  name:
    name: name
    description: A human readable label for an entity
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    owner: FieldResearchSiteFlat
    domain_of:
    - BiosampleFlat
    - CalibrationInformationFlat
    - CollectingBiosamplesFromSiteFlat
    - ConfigurationFlat
    - DataGenerationFlat
    - DataObjectFlat
    - FieldResearchSiteFlat
    - InstrumentFlat
    - ManifestFlat
    - MaterialProcessingFlat
    - OrganismSampleFlat
    - OrganismFlat
    - organism_set_classified_as
    - ProcessedSampleFlat
    - StorageProcessFlat
    - StudyFlat
    - study_set_protocol_link
    - WorkflowExecutionFlat
    range: string
    multivalued: false
  part_of:
    name: part_of
    description: Links a resource to another resource that either logically or physically
      includes it. Reference by identifier; original range was class 'FieldResearchSite'.
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    rank: 1000
    owner: FieldResearchSiteFlat
    domain_of:
    - FieldResearchSiteFlat
    - field_research_site_set_part_of
    - StudyFlat
    - study_set_part_of
    range: string
    multivalued: true
  soil_type:
    name: soil_type
    description: Description of the soil type or classification. This field accepts
      terms under soil (http://purl.obolibrary.org/obo/ENVO_00001998).  Multiple terms
      can be separated by pipes String projected from 'soil_type.has_raw_value' (TextValue).
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    owner: FieldResearchSiteFlat
    domain_of:
    - BiosampleFlat
    - FieldResearchSiteFlat
    range: string
    required: false
    multivalued: false
  type:
    name: type
    description: the class_uri of the class that has been instantiated
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    owner: FieldResearchSiteFlat
    domain_of:
    - BiosampleFlat
    - biosample_set_chem_administration
    - biosample_set_misc_param
    - biosample_set_organism_count
    - CalibrationInformationFlat
    - CollectingBiosamplesFromSiteFlat
    - collecting_biosamples_from_site_set_has_failure_categorization
    - ConfigurationFlat
    - configuration_set_ordered_mobile_phases
    - configuration_set_ordered_mobile_phases_substances_used
    - DataGenerationFlat
    - data_generation_set_has_credit_associations
    - data_generation_set_has_failure_categorization
    - DataObjectFlat
    - FieldResearchSiteFlat
    - FunctionalAnnotationAggMemberFlat
    - FunctionalAnnotationFlat
    - GenomeFeatureFlat
    - InstrumentFlat
    - ManifestFlat
    - MaterialProcessingFlat
    - material_processing_set_has_failure_categorization
    - material_processing_set_ordered_mobile_phases
    - material_processing_set_ordered_mobile_phases_substances_used
    - material_processing_set_substances_used
    - OrganismSampleFlat
    - OrganismFlat
    - organism_set_classified_as
    - ProcessedSampleFlat
    - StorageProcessFlat
    - storage_process_set_has_failure_categorization
    - storage_process_set_substances_used
    - StudyFlat
    - study_set_associated_dois
    - study_set_has_credit_associations
    - study_set_protocol_link
    - study_set_study_image
    - WorkflowExecutionFlat
    - workflow_execution_set_has_failure_categorization
    - workflow_execution_set_has_metabolite_identifications
    - workflow_execution_set_mags_list
    range: uriorcurie
    required: true
    multivalued: false