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Class: Sample

Environmental sample from groundwater monitoring wells. Contains location, depth, and material type using ontology terms.

EXAMPLE SAMPLES: - EU02-D01: Groundwater from well EU02 at 5.4m depth - EU03-D01: Groundwater from well EU03 at 4.6m depth - ED04-D01: Groundwater from well ED04 at 4.8m depth

URI: https://w3id.org/kbase/enigma_coral/Sample

classDiagram class Sample click Sample href "../Sample/" Sample : date Sample : depth_meter Sample : elevation_meter Sample : env_package_sys_oterm_id Sample : env_package_sys_oterm_name Sample : material_sys_oterm_id Sample : material_sys_oterm_name Sample : sdt_location_name Sample : sdt_sample_description Sample : sdt_sample_id Sample : sdt_sample_name Sample : time Sample : timezone

Slots

Name Cardinality and Range Description Inheritance
sdt_sample_id 1
String		 Unique sample identifier direct
sdt_sample_name 0..1
String		 Human-readable sample name (well-date format) direct
sdt_location_name 0..1
String		 Sampling location/well identifier direct
depth_meter 0..1
Float		 Sample depth in meters below ground surface direct
elevation_meter 0..1
Float		 Elevation in meters (above sea level) direct
date 0..1
date		 Sampling date (YYYY-MM-DD) direct
time 0..1
String		 Sampling time (HH:MM format) direct
timezone 0..1
String		 Timezone offset direct
material_sys_oterm_id 0..1
String		 ENVO ontology term ID for sample material type direct
material_sys_oterm_name 0..1
String		 Human-readable material type name direct
env_package_sys_oterm_id 0..1
String		 MIxS environmental package term ID direct
env_package_sys_oterm_name 0..1
String		 MIxS environmental package name direct
sdt_sample_description 0..1
String		 Free-text sample description direct

Identifier and Mapping Information

Annotations

property value
source_table sdt_sample

Schema Source

  • from schema: https://w3id.org/kbase/enigma_coral

Mappings

Mapping Type Mapped Value
self https://w3id.org/kbase/enigma_coral/Sample
native https://w3id.org/kbase/enigma_coral/Sample

LinkML Source

Direct

name: Sample
annotations:
  source_table:
    tag: source_table
    value: sdt_sample
description: 'Environmental sample from groundwater monitoring wells. Contains location,
  depth, and material type using ontology terms.

  EXAMPLE SAMPLES: - EU02-D01: Groundwater from well EU02 at 5.4m depth - EU03-D01:
  Groundwater from well EU03 at 4.6m depth - ED04-D01: Groundwater from well ED04
  at 4.8m depth'
from_schema: https://w3id.org/kbase/enigma_coral
attributes:
  sdt_sample_id:
    name: sdt_sample_id
    description: Unique sample identifier
    examples:
    - value: Sample0000001
    - value: Sample0000002
    - value: Sample0000003
    from_schema: https://w3id.org/kbase/enigma_coral
    rank: 1000
    identifier: true
    domain_of:
    - Sample
    range: string
    required: true
    pattern: Sample\d{7}
  sdt_sample_name:
    name: sdt_sample_name
    description: Human-readable sample name (well-date format)
    examples:
    - value: EU02-D01
      description: Well EU02, sampling day 01
    - value: EU03-D01
    - value: ED04-D01
    from_schema: https://w3id.org/kbase/enigma_coral
    rank: 1000
    domain_of:
    - Sample
    range: string
  sdt_location_name:
    name: sdt_location_name
    description: Sampling location/well identifier
    comments:
    - Foreign key to Location.sdt_location_name
    examples:
    - value: EU02
    - value: EU03
    - value: ED04
    from_schema: https://w3id.org/kbase/enigma_coral
    rank: 1000
    domain_of:
    - Sample
    - Location
    range: string
  depth_meter:
    name: depth_meter
    description: Sample depth in meters below ground surface
    examples:
    - value: '5.401056'
    - value: '4.605528'
    - value: '4.7625'
    from_schema: https://w3id.org/kbase/enigma_coral
    rank: 1000
    domain_of:
    - Sample
    range: float
    minimum_value: 0.0
  elevation_meter:
    name: elevation_meter
    description: Elevation in meters (above sea level)
    from_schema: https://w3id.org/kbase/enigma_coral
    rank: 1000
    domain_of:
    - Sample
    range: float
  date:
    name: date
    description: Sampling date (YYYY-MM-DD)
    examples:
    - value: '2019-07-29'
    from_schema: https://w3id.org/kbase/enigma_coral
    rank: 1000
    domain_of:
    - Sample
    range: date
  time:
    name: time
    description: Sampling time (HH:MM format)
    examples:
    - value: '6:59'
    - value: '8:09'
    - value: '8:58'
    from_schema: https://w3id.org/kbase/enigma_coral
    rank: 1000
    domain_of:
    - Sample
    range: string
  timezone:
    name: timezone
    description: Timezone offset
    examples:
    - value: UTC-04
    from_schema: https://w3id.org/kbase/enigma_coral
    rank: 1000
    domain_of:
    - Sample
    range: string
  material_sys_oterm_id:
    name: material_sys_oterm_id
    description: ENVO ontology term ID for sample material type
    examples:
    - value: ENVO:00002041
      description: Ground water
    from_schema: https://w3id.org/kbase/enigma_coral
    rank: 1000
    domain_of:
    - Sample
    range: string
  material_sys_oterm_name:
    name: material_sys_oterm_name
    description: Human-readable material type name
    examples:
    - value: ground water
    from_schema: https://w3id.org/kbase/enigma_coral
    rank: 1000
    domain_of:
    - Sample
    range: string
  env_package_sys_oterm_id:
    name: env_package_sys_oterm_id
    description: MIxS environmental package term ID
    examples:
    - value: MIxS:0000017
      description: Water package
    from_schema: https://w3id.org/kbase/enigma_coral
    rank: 1000
    domain_of:
    - Sample
    range: string
  env_package_sys_oterm_name:
    name: env_package_sys_oterm_name
    description: MIxS environmental package name
    examples:
    - value: water
    from_schema: https://w3id.org/kbase/enigma_coral
    rank: 1000
    domain_of:
    - Sample
    range: string
  sdt_sample_description:
    name: sdt_sample_description
    description: Free-text sample description
    examples:
    - value: 1 L purged
    from_schema: https://w3id.org/kbase/enigma_coral
    rank: 1000
    domain_of:
    - Sample
    range: string

Induced

name: Sample
annotations:
  source_table:
    tag: source_table
    value: sdt_sample
description: 'Environmental sample from groundwater monitoring wells. Contains location,
  depth, and material type using ontology terms.

  EXAMPLE SAMPLES: - EU02-D01: Groundwater from well EU02 at 5.4m depth - EU03-D01:
  Groundwater from well EU03 at 4.6m depth - ED04-D01: Groundwater from well ED04
  at 4.8m depth'
from_schema: https://w3id.org/kbase/enigma_coral
attributes:
  sdt_sample_id:
    name: sdt_sample_id
    description: Unique sample identifier
    examples:
    - value: Sample0000001
    - value: Sample0000002
    - value: Sample0000003
    from_schema: https://w3id.org/kbase/enigma_coral
    rank: 1000
    identifier: true
    alias: sdt_sample_id
    owner: Sample
    domain_of:
    - Sample
    range: string
    required: true
    pattern: Sample\d{7}
  sdt_sample_name:
    name: sdt_sample_name
    description: Human-readable sample name (well-date format)
    examples:
    - value: EU02-D01
      description: Well EU02, sampling day 01
    - value: EU03-D01
    - value: ED04-D01
    from_schema: https://w3id.org/kbase/enigma_coral
    rank: 1000
    alias: sdt_sample_name
    owner: Sample
    domain_of:
    - Sample
    range: string
  sdt_location_name:
    name: sdt_location_name
    description: Sampling location/well identifier
    comments:
    - Foreign key to Location.sdt_location_name
    examples:
    - value: EU02
    - value: EU03
    - value: ED04
    from_schema: https://w3id.org/kbase/enigma_coral
    rank: 1000
    alias: sdt_location_name
    owner: Sample
    domain_of:
    - Sample
    - Location
    range: string
  depth_meter:
    name: depth_meter
    description: Sample depth in meters below ground surface
    examples:
    - value: '5.401056'
    - value: '4.605528'
    - value: '4.7625'
    from_schema: https://w3id.org/kbase/enigma_coral
    rank: 1000
    alias: depth_meter
    owner: Sample
    domain_of:
    - Sample
    range: float
    minimum_value: 0.0
  elevation_meter:
    name: elevation_meter
    description: Elevation in meters (above sea level)
    from_schema: https://w3id.org/kbase/enigma_coral
    rank: 1000
    alias: elevation_meter
    owner: Sample
    domain_of:
    - Sample
    range: float
  date:
    name: date
    description: Sampling date (YYYY-MM-DD)
    examples:
    - value: '2019-07-29'
    from_schema: https://w3id.org/kbase/enigma_coral
    rank: 1000
    alias: date
    owner: Sample
    domain_of:
    - Sample
    range: date
  time:
    name: time
    description: Sampling time (HH:MM format)
    examples:
    - value: '6:59'
    - value: '8:09'
    - value: '8:58'
    from_schema: https://w3id.org/kbase/enigma_coral
    rank: 1000
    alias: time
    owner: Sample
    domain_of:
    - Sample
    range: string
  timezone:
    name: timezone
    description: Timezone offset
    examples:
    - value: UTC-04
    from_schema: https://w3id.org/kbase/enigma_coral
    rank: 1000
    alias: timezone
    owner: Sample
    domain_of:
    - Sample
    range: string
  material_sys_oterm_id:
    name: material_sys_oterm_id
    description: ENVO ontology term ID for sample material type
    examples:
    - value: ENVO:00002041
      description: Ground water
    from_schema: https://w3id.org/kbase/enigma_coral
    rank: 1000
    alias: material_sys_oterm_id
    owner: Sample
    domain_of:
    - Sample
    range: string
  material_sys_oterm_name:
    name: material_sys_oterm_name
    description: Human-readable material type name
    examples:
    - value: ground water
    from_schema: https://w3id.org/kbase/enigma_coral
    rank: 1000
    alias: material_sys_oterm_name
    owner: Sample
    domain_of:
    - Sample
    range: string
  env_package_sys_oterm_id:
    name: env_package_sys_oterm_id
    description: MIxS environmental package term ID
    examples:
    - value: MIxS:0000017
      description: Water package
    from_schema: https://w3id.org/kbase/enigma_coral
    rank: 1000
    alias: env_package_sys_oterm_id
    owner: Sample
    domain_of:
    - Sample
    range: string
  env_package_sys_oterm_name:
    name: env_package_sys_oterm_name
    description: MIxS environmental package name
    examples:
    - value: water
    from_schema: https://w3id.org/kbase/enigma_coral
    rank: 1000
    alias: env_package_sys_oterm_name
    owner: Sample
    domain_of:
    - Sample
    range: string
  sdt_sample_description:
    name: sdt_sample_description
    description: Free-text sample description
    examples:
    - value: 1 L purged
    from_schema: https://w3id.org/kbase/enigma_coral
    rank: 1000
    alias: sdt_sample_description
    owner: Sample
    domain_of:
    - Sample
    range: string