Class: ChromatographyConfiguration

Configuration and settings for a chromatography run.

URI: basalt_schema:ChromatographyConfiguration

 classDiagram
    class ChromatographyConfiguration
    click ChromatographyConfiguration href "../ChromatographyConfiguration/"
      Configuration <|-- ChromatographyConfiguration
        click Configuration href "../Configuration/"

      ChromatographyConfiguration : chromatography_type





        ChromatographyConfiguration --> "1" ChromatographyCategoryEnum : chromatography_type
        click ChromatographyCategoryEnum href "../ChromatographyCategoryEnum/"



      ChromatographyConfiguration : column

      ChromatographyConfiguration : column_dimensions

      ChromatographyConfiguration : column_manufacturer

      ChromatographyConfiguration : description

      ChromatographyConfiguration : duration_min

      ChromatographyConfiguration : flow_rate_ul_min

      ChromatographyConfiguration : id

      ChromatographyConfiguration : injection_volume_ul

      ChromatographyConfiguration : mobile_phases





        ChromatographyConfiguration --> "*" MobilePhaseSegment : mobile_phases
        click MobilePhaseSegment href "../MobilePhaseSegment/"



      ChromatographyConfiguration : name

      ChromatographyConfiguration : stationary_phase

      ChromatographyConfiguration : temperature_celsius

Inheritance

Configuration
- ChromatographyConfiguration

Slots

Name	Cardinality and Range	Description	Inheritance
column	0..1 String	The name or identifier of the chromatography column used	direct
column_dimensions	0..1 String	Dimensions of the chromatography column used in the process	direct
column_manufacturer	0..1 String	Name of the institution that manufactured the chromatography column	direct
chromatography_type	1 ChromatographyCategoryEnum	Type of chromatography used in the method (e	direct
mobile_phases	* MobilePhaseSegment	Description of the mobile phases used in the chromatography method (e	direct
stationary_phase	0..1 String	Description of the stationary phase used in the chromatography method (e	direct
temperature_celsius	0..1 Float	Temperature at which the method/process/activity was performed	direct
duration_min	0..1 Float	how long something took, in minutes	direct
flow_rate_ul_min	0..1 Float	Flow rate of the mobile phase, in microliters per minute	direct
injection_volume_ul	0..1 Float		direct
name	1 String	Human-readable name for the entity or activity	Configuration
description	0..1 String	Human-readable description for the entity or activity	Configuration
id	1 Uuid		Configuration

Usages

used by	used in	type	used
MassSpectrometryDataGenerationActivity	uses_chromatography	range	ChromatographyConfiguration

Identifier and Mapping Information

Schema Source

from schema: https://EMSL-Computing.github.io/BASALT-Schema

Mappings

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

LinkML Source

Direct

name: ChromatographyConfiguration
description: Configuration and settings for a chromatography run.
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
is_a: Configuration
slots:
- column
- column_dimensions
- column_manufacturer
- chromatography_type
- mobile_phases
- stationary_phase
- temperature_celsius
- duration_min
- flow_rate_ul_min
- injection_volume_ul

Induced

name: ChromatographyConfiguration
description: Configuration and settings for a chromatography run.
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
is_a: Configuration
attributes:
  column:
    name: column
    description: The name or identifier of the chromatography column used.
    from_schema: https://EMSL-Computing.github.io/BASALT-Schema
    rank: 1000
    alias: column
    owner: ChromatographyConfiguration
    domain_of:
    - ChromatographyConfiguration
    - TOC_TN_Method
    range: string
  column_dimensions:
    name: column_dimensions
    description: Dimensions of the chromatography column used in the process.
    from_schema: https://EMSL-Computing.github.io/BASALT-Schema
    rank: 1000
    alias: column_dimensions
    owner: ChromatographyConfiguration
    domain_of:
    - ChromatographyConfiguration
    range: string
  column_manufacturer:
    name: column_manufacturer
    description: Name of the institution that manufactured the chromatography column.
    from_schema: https://EMSL-Computing.github.io/BASALT-Schema
    rank: 1000
    alias: column_manufacturer
    owner: ChromatographyConfiguration
    domain_of:
    - ChromatographyConfiguration
    range: string
  chromatography_type:
    name: chromatography_type
    description: Type of chromatography used in the method (e.g., GC, LC)
    from_schema: https://EMSL-Computing.github.io/BASALT-Schema
    rank: 1000
    alias: chromatography_type
    owner: ChromatographyConfiguration
    domain_of:
    - ChromatographyConfiguration
    range: ChromatographyCategoryEnum
    required: true
  mobile_phases:
    name: mobile_phases
    description: Description of the mobile phases used in the chromatography method
      (e.g., solvents, gradients)
    from_schema: https://EMSL-Computing.github.io/BASALT-Schema
    rank: 1000
    alias: mobile_phases
    owner: ChromatographyConfiguration
    domain_of:
    - ChromatographyConfiguration
    range: MobilePhaseSegment
    multivalued: true
  stationary_phase:
    name: stationary_phase
    description: Description of the stationary phase used in the chromatography method
      (e.g., column type)
    from_schema: https://EMSL-Computing.github.io/BASALT-Schema
    rank: 1000
    alias: stationary_phase
    owner: ChromatographyConfiguration
    domain_of:
    - ChromatographyConfiguration
    range: string
  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: ChromatographyConfiguration
    domain_of:
    - ChromatographyConfiguration
    - HasIncubationConditions
    range: float
  duration_min:
    name: duration_min
    description: how long something took, in minutes
    from_schema: https://EMSL-Computing.github.io/BASALT-Schema
    rank: 1000
    alias: duration_min
    owner: ChromatographyConfiguration
    domain_of:
    - ChromatographyConfiguration
    - MobilePhaseSegment
    range: float
  flow_rate_ul_min:
    name: flow_rate_ul_min
    description: Flow rate of the mobile phase, in microliters per minute.
    title: flow rate (uL/min)
    from_schema: https://EMSL-Computing.github.io/BASALT-Schema
    rank: 1000
    alias: flow_rate_ul_min
    owner: ChromatographyConfiguration
    domain_of:
    - ChromatographyConfiguration
    range: float
  injection_volume_ul:
    name: injection_volume_ul
    todos:
    - description - not sure what this is referencing
    from_schema: https://EMSL-Computing.github.io/BASALT-Schema
    rank: 1000
    alias: injection_volume_ul
    owner: ChromatographyConfiguration
    domain_of:
    - ChromatographyConfiguration
    range: float
  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: ChromatographyConfiguration
    domain_of:
    - Activity
    - Entity
    - DataProduct
    - DataGenerationActivity
    - Instrument
    - OntologyClass
    - ContainerAxis
    - Configuration
    - MobilePhaseSegment
    - MassSpectrometryStandardRun
    - PurchasedMaterial
    - LabProcessingActivity
    - organism
    - Site
    - Sample
    - SamplingActivity
    - SoilSamplingActivity
    - 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: ChromatographyConfiguration
    domain_of:
    - Activity
    - Entity
    - DataProduct
    - DataGenerationActivity
    - DataProcessingActivity
    - OntologyClass
    - ContainerType
    - LabDevice
    - Configuration
    - MassSpectrometryStandardRun
    - PurchasedMaterial
    - LabProcessingActivity
    - organism
    - Site
    - Sample
    - SamplingActivity
    - SoilSamplingActivity
    - Study
    - TimestampValue
    - TextValue
    - SoftwareControlledTermValue
    - ControlledTermValue
    - QuantityValue
    range: string
  id:
    name: id
    from_schema: https://EMSL-Computing.github.io/BASALT-Schema/mass-spec
    alias: id
    owner: ChromatographyConfiguration
    domain_of:
    - Activity
    - Entity
    - DataProduct
    - DataGenerationActivity
    - DataProcessingActivity
    - AlternativeIdentifier
    - FunctionalAnnotationIdentifier
    - Instrument
    - OntologyClass
    - ContainerType
    - Custodian
    - InstrumentAlternativeIdentifier
    - LabDevice
    - SampleProcessing
    - ProcessingSampleLink
    - Configuration
    - MobilePhaseSegment
    - MassSpectrometryStandardRun
    - PurchasedMaterial
    - LabProcessingActivity
    - organism
    - MAOMProduct
    - WEOMProduct
    - 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
    - Study
    - ProjectParticipant
    - TimestampValue
    - TextValue
    - SoftwareControlledTermValue
    - ControlledTermValue
    - PersonValue
    - QuantityValue
    - ConditioningValue
    - zipDownload
    range: uuid
    required: true