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Class: RIDataGenerationActivity

Refractive Index (RI) measurement activity.

Represents one measurement session for a sample using a RI detector.

URI: basalt_schema:RIDataGenerationActivity

 classDiagram
    class RIDataGenerationActivity
    click RIDataGenerationActivity href "../RIDataGenerationActivity/"
      DataGenerationActivity <|-- RIDataGenerationActivity
        click DataGenerationActivity href "../DataGenerationActivity/"

      RIDataGenerationActivity : acquisition_end_time

      RIDataGenerationActivity : acquisition_start_time

      RIDataGenerationActivity : analyte_id





        RIDataGenerationActivity --> "0..1" ProcessedSample : analyte_id
        click ProcessedSample href "../ProcessedSample/"



      RIDataGenerationActivity : calibration_standard





        RIDataGenerationActivity --> "0..1" PurchasedMaterial : calibration_standard
        click PurchasedMaterial href "../PurchasedMaterial/"



      RIDataGenerationActivity : description

      RIDataGenerationActivity : id

      RIDataGenerationActivity : instrument_operator





        RIDataGenerationActivity --> "0..1" PersonValue : instrument_operator
        click PersonValue href "../PersonValue/"



      RIDataGenerationActivity : instrument_used





        RIDataGenerationActivity --> "0..1" Instrument : instrument_used
        click Instrument href "../Instrument/"



      RIDataGenerationActivity : name

      RIDataGenerationActivity : protocol_url

      RIDataGenerationActivity : protocol_version

      RIDataGenerationActivity : sequence_order

      RIDataGenerationActivity : temperature_celsius

      RIDataGenerationActivity : uses_calibration





        RIDataGenerationActivity --> "0..1" CalibrationStandardRun : uses_calibration
        click CalibrationStandardRun href "../CalibrationStandardRun/"



      RIDataGenerationActivity : uses_chromatography





        RIDataGenerationActivity --> "0..1" ChromatographyConfiguration : uses_chromatography
        click ChromatographyConfiguration href "../ChromatographyConfiguration/"



      RIDataGenerationActivity : wavelength_nm

Inheritance

Slots

Name Cardinality and Range Description Inheritance
wavelength_nm 1
Integer		 Measurement wavelength in nanometres (e direct
temperature_celsius 0..1
Float		 Temperature at which the method/process/activity was performed direct
calibration_standard 0..1
PurchasedMaterial		 The reference standard used for calibration direct
uses_chromatography 0..1
ChromatographyConfiguration		 Points to a record of the chromatography configuration used to separate analy... direct
uses_calibration 0..1
CalibrationStandardRun		 Reference to the raw data file from the standard which was run with a batch o... direct
sequence_order 0..1
Integer		 Integer ordering within a temporal series for the same analyte DataGenerationActivity
name 1
String		 Human-readable name for the entity or activity DataGenerationActivity
description 0..1
String		 Human-readable description for the entity or activity DataGenerationActivity
analyte_id 0..1
ProcessedSample		 FK reference to a ProcessedSample representing the substance analyzed in this... DataGenerationActivity
protocol_url 0..1
String		 URL pointing to the protocol used in the activity, if applicable DataGenerationActivity
protocol_version 0..1
String		 Version of the protocol used in the activity, if applicable DataGenerationActivity
acquisition_start_time 0..1
Datetime		 The time that data collection started for this activity DataGenerationActivity
acquisition_end_time 0..1
Datetime		 The time that data collection ended for this activity DataGenerationActivity
instrument_used 0..1
Instrument		 Instrument used for the measurement DataGenerationActivity
instrument_operator 0..1
PersonValue		 User who operated the instrument DataGenerationActivity
id 1
Uuid		 DataGenerationActivity

Usages

used by used in type used
RIProduct produced_by_ri_run range RIDataGenerationActivity

Identifier and Mapping Information

Schema Source

Mappings

Mapping Type Mapped Value
self basalt_schema:RIDataGenerationActivity
native basalt_schema:RIDataGenerationActivity

LinkML Source

Direct

name: RIDataGenerationActivity
description: 'Refractive Index (RI) measurement activity.

  Represents one measurement session for a sample using a RI detector.'
from_schema: https://emsl-computing.github.io/BASALT-Schema
is_a: DataGenerationActivity
slots:
- wavelength_nm
- temperature_celsius
- calibration_standard
- uses_chromatography
- uses_calibration

Induced

name: RIDataGenerationActivity
description: 'Refractive Index (RI) measurement activity.

  Represents one measurement session for a sample using a RI detector.'
from_schema: https://emsl-computing.github.io/BASALT-Schema
is_a: DataGenerationActivity
attributes:
  wavelength_nm:
    name: wavelength_nm
    description: Measurement wavelength in nanometres (e.g. 590 Ecoplate, 610 AMP2
      OD)
    from_schema: https://emsl-computing.github.io/BASALT-Schema
    rank: 1000
    alias: wavelength_nm
    owner: RIDataGenerationActivity
    domain_of:
    - RIDataGenerationActivity
    - UVChannelConfig
    - AMP2DataGenerationActivity
    - EcoplateDataGenerationActivity
    - PlateProduct
    range: integer
    required: true
  temperature_celsius:
    name: temperature_celsius
    description: Temperature at which the method/process/activity was performed
    from_schema: https://emsl-computing.github.io/BASALT-Schema
    rank: 1000
    alias: temperature_celsius
    owner: RIDataGenerationActivity
    domain_of:
    - RIDataGenerationActivity
    - ChromatographyConfiguration
    - HasIncubationConditions
    - ChemicalConversionProcess
    range: float
  calibration_standard:
    name: calibration_standard
    description: The reference standard used for calibration
    from_schema: https://emsl-computing.github.io/BASALT-Schema
    rank: 1000
    alias: calibration_standard
    owner: RIDataGenerationActivity
    domain_of:
    - RIDataGenerationActivity
    - CalibrationStandardRun
    range: PurchasedMaterial
  uses_chromatography:
    name: uses_chromatography
    description: Points to a record of the chromatography configuration used to separate
      analytes.
    from_schema: https://emsl-computing.github.io/BASALT-Schema
    rank: 1000
    alias: uses_chromatography
    owner: RIDataGenerationActivity
    domain_of:
    - RIDataGenerationActivity
    - UVDataGenerationActivity
    - MassSpectrometryDataGenerationActivity
    - FractionationProcess
    - SolidPhaseExtractionProcess
    range: ChromatographyConfiguration
  uses_calibration:
    name: uses_calibration
    description: Reference to the raw data file from the standard which was run with
      a batch of samples that was used as calibration for this data processing workflow
      run.
    from_schema: https://emsl-computing.github.io/BASALT-Schema
    rank: 1000
    alias: uses_calibration
    owner: RIDataGenerationActivity
    domain_of:
    - RIDataGenerationActivity
    - UVDataGenerationActivity
    - MassSpectrometryDataProcessingActivity
    range: CalibrationStandardRun
  sequence_order:
    name: sequence_order
    description: "Integer ordering within a temporal series for the same analyte.\n\
      Lower = earlier in series. Use when acquisition_time alone is insufficient.\n\
      \nDDL: ALTER TABLE \"DataGenerationActivity\"\n       ADD COLUMN sequence_order\
      \ INTEGER;"
    from_schema: https://emsl-computing.github.io/BASALT-Schema
    rank: 1000
    alias: sequence_order
    owner: RIDataGenerationActivity
    domain_of:
    - DataGenerationActivity
    range: integer
    required: false
  name:
    name: name
    description: Human-readable name for the entity or activity.
    from_schema: https://emsl-computing.github.io/BASALT-Schema
    rank: 1000
    alias: name
    owner: RIDataGenerationActivity
    domain_of:
    - Activity
    - Entity
    - DataProduct
    - DataGenerationActivity
    - Instrument
    - OntologyClass
    - ContainerAxis
    - SampleProcessing
    - Configuration
    - CalibrationStandardRun
    - PurchasedMaterial
    - organism
    - Site
    - Sample
    - SamplingActivity
    - SoilSamplingActivity
    - SampleProcessingProtocol
    - SampleProcessingRun
    - Study
    - SoftwareControlledTermValue
    range: string
    required: true
  description:
    name: description
    description: Human-readable description for the entity or activity
    title: description
    from_schema: https://emsl-computing.github.io/BASALT-Schema
    rank: 1000
    alias: description
    owner: RIDataGenerationActivity
    domain_of:
    - Activity
    - Entity
    - DataProduct
    - DataGenerationActivity
    - DataProcessingActivity
    - OntologyClass
    - ContainerType
    - LabDevice
    - SampleProcessing
    - Configuration
    - CalibrationStandardRun
    - PurchasedMaterial
    - organism
    - Site
    - Sample
    - SamplingActivity
    - SoilSamplingActivity
    - SampleProcessingProtocol
    - SampleProcessingRun
    - Study
    - TimestampValue
    - TextValue
    - SoftwareControlledTermValue
    - ControlledTermValue
    - QuantityValue
    range: string
  analyte_id:
    name: analyte_id
    description: FK reference to a ProcessedSample representing the substance analyzed
      in this activity.
    from_schema: https://emsl-computing.github.io/BASALT-Schema
    rank: 1000
    alias: analyte_id
    owner: RIDataGenerationActivity
    domain_of:
    - DataGenerationActivity
    range: ProcessedSample
  protocol_url:
    name: protocol_url
    description: URL pointing to the protocol used in the activity, if applicable.
    from_schema: https://emsl-computing.github.io/BASALT-Schema
    rank: 1000
    alias: protocol_url
    owner: RIDataGenerationActivity
    domain_of:
    - DataGenerationActivity
    - SampleProcessingProtocol
    range: string
  protocol_version:
    name: protocol_version
    description: Version of the protocol used in the activity, if applicable.
    from_schema: https://emsl-computing.github.io/BASALT-Schema
    rank: 1000
    alias: protocol_version
    owner: RIDataGenerationActivity
    domain_of:
    - DataGenerationActivity
    - SampleProcessingProtocol
    range: string
  acquisition_start_time:
    name: acquisition_start_time
    description: The time that data collection started for this activity.
    from_schema: https://emsl-computing.github.io/BASALT-Schema
    rank: 1000
    alias: acquisition_start_time
    owner: RIDataGenerationActivity
    domain_of:
    - DataGenerationActivity
    range: datetime
  acquisition_end_time:
    name: acquisition_end_time
    description: The time that data collection ended for this activity.
    from_schema: https://emsl-computing.github.io/BASALT-Schema
    rank: 1000
    alias: acquisition_end_time
    owner: RIDataGenerationActivity
    domain_of:
    - DataGenerationActivity
    range: datetime
  instrument_used:
    name: instrument_used
    description: Instrument used for the measurement
    from_schema: https://emsl-computing.github.io/BASALT-Schema
    rank: 1000
    alias: instrument_used
    owner: RIDataGenerationActivity
    domain_of:
    - DataGenerationActivity
    range: Instrument
  instrument_operator:
    name: instrument_operator
    description: User who operated the instrument
    from_schema: https://emsl-computing.github.io/BASALT-Schema
    rank: 1000
    alias: instrument_operator
    owner: RIDataGenerationActivity
    domain_of:
    - DataGenerationActivity
    range: PersonValue
  id:
    name: id
    from_schema: https://emsl-computing.github.io/BASALT-Schema
    identifier: true
    alias: id
    owner: RIDataGenerationActivity
    domain_of:
    - Activity
    - Entity
    - DataProduct
    - DataGenerationActivity
    - DataProcessingActivity
    - AlternativeIdentifier
    - FunctionalAnnotationIdentifier
    - Instrument
    - OntologyClass
    - ContainerType
    - Custodian
    - InstrumentAlternativeIdentifier
    - LabDevice
    - SampleProcessing
    - ProcessingSampleLink
    - Configuration
    - MobilePhaseSegment
    - MobilePhase
    - MobilePhaseSubstance
    - CalibrationStandardRun
    - PurchasedMaterial
    - MAOMProduct
    - WEOMProduct
    - organism
    - Site
    - Sample
    - AerosolArmSample
    - AerosolSample
    - AMP2UserSample
    - CommerciallyPurchasedSample
    - CultureEnvironmentalSample
    - EngineeredStrainSample
    - FieldDeployedTerraformSample
    - MixedCultureSample
    - MonetSoilSample
    - OtherUndescribedSample
    - PlantSample
    - PureCultureSample
    - SedimentSample
    - SoilSample
    - SynthesizedMaterialSample
    - TerraformSample
    - WaterSample
    - ProcessedSample
    - CoreSection
    - SamplingActivity
    - AerosolArmSamplingActivity
    - AerosolSamplingActivity
    - CommerciallyPurchasedSamplingActivity
    - CultureEnvironmentalSamplingActivity
    - EngineeredStrainSamplingActivity
    - FieldDeployedTerraformSamplingActivity
    - MixedCultureSamplingActivity
    - MonetSoilSamplingActivity
    - OtherUndescribedSamplingActivity
    - PlantSamplingActivity
    - PureCultureSamplingActivity
    - SedimentSamplingActivity
    - SoilSamplingActivity
    - SynthesizedMaterialSamplingActivity
    - TerraformSamplingActivity
    - WaterSamplingActivity
    - SampleProcessingProtocol
    - SampleProcessingRun
    - SubstancesUsedLink
    - SampleProcessingSubstance
    - Study
    - ProjectParticipant
    - TimestampValue
    - TextValue
    - SoftwareControlledTermValue
    - ControlledTermValue
    - PersonValue
    - QuantityValue
    - ConditioningValue
    - zipDownload
    range: uuid
    required: true