Class: HasIncubationConditions

Mixin for activities/setups that involve controlled incubation.

Used by CultureGrowth activities AND PlateSetupActivity, which share

temperature and agitation parameters but live in different branches

of the sampleProcessing is_a tree.

URI: basalt_schema:HasIncubationConditions

 classDiagram
    class HasIncubationConditions
    click HasIncubationConditions href "../HasIncubationConditions/"
      HasIncubationConditions <|-- CultureGrowth
        click CultureGrowth href "../CultureGrowth/"
      HasIncubationConditions <|-- PlateSetupActivity
        click PlateSetupActivity href "../PlateSetupActivity/"

      HasIncubationConditions : agitation_speed_rpm

      HasIncubationConditions : oxygen_relationship





        HasIncubationConditions --> "0..1" OxygenStatusEnum : oxygen_relationship
        click OxygenStatusEnum href "../OxygenStatusEnum/"



      HasIncubationConditions : temperature_celsius

Class Properties

Property	Value
Mixin	Yes

Slots

Name	Cardinality and Range	Description	Inheritance
temperature_celsius	0..1 Float	Temperature at which the method/process/activity was performed	direct
agitation_speed_rpm	0..1 Integer	Agitation/shaking speed in RPM (0 for static)	direct
oxygen_relationship	0..1 OxygenStatusEnum	The relationship of the sample to oxygen, such as aerobic or anaerobic	direct

Mixin Usage

mixed into	description
CultureGrowth	Abstract activity for growing cultures from samples or other cultures
PlateSetupActivity	Abstract base for 96-well plate setup activities

Identifier and Mapping Information

Schema Source

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

Mappings

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

LinkML Source

Direct

name: HasIncubationConditions
description: 'Mixin for activities/setups that involve controlled incubation.

  Used by CultureGrowth activities AND PlateSetupActivity, which share

  temperature and agitation parameters but live in different branches

  of the sampleProcessing is_a tree.'
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
mixin: true
slots:
- temperature_celsius
- agitation_speed_rpm
- oxygen_relationship

Induced

name: HasIncubationConditions
description: 'Mixin for activities/setups that involve controlled incubation.

  Used by CultureGrowth activities AND PlateSetupActivity, which share

  temperature and agitation parameters but live in different branches

  of the sampleProcessing is_a tree.'
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
mixin: true
attributes:
  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: HasIncubationConditions
    domain_of:
    - ChromatographyConfiguration
    - HasIncubationConditions
    range: float
  agitation_speed_rpm:
    name: agitation_speed_rpm
    description: Agitation/shaking speed in RPM (0 for static)
    from_schema: https://EMSL-Computing.github.io/BASALT-Schema
    rank: 1000
    alias: agitation_speed_rpm
    owner: HasIncubationConditions
    domain_of:
    - HasIncubationConditions
    range: integer
  oxygen_relationship:
    name: oxygen_relationship
    description: The relationship of the sample to oxygen, such as aerobic or anaerobic.
    title: oxygen relationship
    from_schema: https://EMSL-Computing.github.io/BASALT-Schema
    exact_mappings:
    - MIXS:0000015
    rank: 1000
    alias: oxygen_status
    owner: HasIncubationConditions
    domain_of:
    - HasIncubationConditions
    - CommerciallyPurchasedSample
    - CultureEnvironmentalSample
    - FieldDeployedTerraformSample
    - MixedCultureSample
    - OtherUndescribedSample
    - PureCultureSample
    - SedimentSample
    - SoilSample
    - SynthesizedMaterialSample
    - TerraformSample
    - WaterSample
    range: OxygenStatusEnum