Class: CommerciallyPurchasedSample
A sample containing commercially purchased material.
URI: basalt_schema:CommerciallyPurchasedSample
classDiagram
class CommerciallyPurchasedSample
click CommerciallyPurchasedSample href "../CommerciallyPurchasedSample/"
Sample <|-- CommerciallyPurchasedSample
click Sample href "../Sample/"
CommerciallyPurchasedSample : analysis_type
CommerciallyPurchasedSample : cas
CommerciallyPurchasedSample : compound_name
CommerciallyPurchasedSample : description
CommerciallyPurchasedSample : emsl_activity
CommerciallyPurchasedSample : experimental_factor
CommerciallyPurchasedSample : experimental_factor_other
CommerciallyPurchasedSample : external_identifiers
CommerciallyPurchasedSample : id
CommerciallyPurchasedSample : item_number
CommerciallyPurchasedSample : lims_barcode
CommerciallyPurchasedSample : method_development
CommerciallyPurchasedSample : name
CommerciallyPurchasedSample : other
CommerciallyPurchasedSample : other_samp_store_temp
CommerciallyPurchasedSample : other_storage_condt
CommerciallyPurchasedSample : other_treatment
CommerciallyPurchasedSample : oxygen_relationship
CommerciallyPurchasedSample --> "0..1" OxygenStatusEnum : oxygen_relationship
click OxygenStatusEnum href "../OxygenStatusEnum/"
CommerciallyPurchasedSample : production_method
CommerciallyPurchasedSample : project
CommerciallyPurchasedSample : replicate_number
CommerciallyPurchasedSample : samp_store_temp
CommerciallyPurchasedSample --> "0..1" SampleStoreTempEnum : samp_store_temp
click SampleStoreTempEnum href "../SampleStoreTempEnum/"
CommerciallyPurchasedSample : sample_link
CommerciallyPurchasedSample : sample_name
CommerciallyPurchasedSample : sample_processing
CommerciallyPurchasedSample : sampled_during
CommerciallyPurchasedSample --> "0..1" SamplingActivity : sampled_during
click SamplingActivity href "../SamplingActivity/"
CommerciallyPurchasedSample : source_mat_id
CommerciallyPurchasedSample : storage_condition
CommerciallyPurchasedSample --> "0..1" StorageConditionEnum : storage_condition
click StorageConditionEnum href "../StorageConditionEnum/"
CommerciallyPurchasedSample : storage_condition_other
CommerciallyPurchasedSample : technical_reps
CommerciallyPurchasedSample : temp
Inheritance
- Sample
- CommerciallyPurchasedSample
Slots
| Name | Cardinality and Range | Description | Inheritance |
|---|---|---|---|
| analysis_type | 1 String |
The type(s) of analysis planned for this sample | direct |
| cas | 0..1 String |
A unique numerical identifier assigned by the Chemical Abstract Service (CAS)... | direct |
| compound_name | 1 String |
The name of the purchased material | direct |
| experimental_factor | 0..1 String |
Experimental factors are essentially the variable aspects of an experiment de... | direct |
| experimental_factor_other | 0..1 String |
Other details about your sample that you feel can't be accurately represented... | direct |
| external_identifiers | * Uriorcurie |
List of external identifiers associated with this entity or activity | direct |
| item_number | 0..1 String |
The item number of the purchased material | direct |
| method_development | 0..1 String |
If your samples are TEST sample ONLY, please provide information on what you'... | direct |
| other | 0..1 String |
Other/additional details about your sample that you feel can't be accurately ... | direct |
| other_samp_store_temp | 0..1 String |
Please specify sample storage temperature if you selected 'other' | direct |
| other_storage_condt | 0..1 String |
Please specify your storage conditions if you selected 'other' and the availa... | direct |
| other_treatment | 0..1 String |
Many sample treatment descriptor columns are available | direct |
| oxygen_relationship | 0..1 OxygenStatusEnum |
The relationship of the sample to oxygen, such as aerobic or anaerobic | direct |
| production_method | 0..1 String |
A DOI or description of how the compound was produced, if the commercially pu... | direct |
| project | 0..1 Integer |
Identifier for the user project associated with the entity or activity | direct |
| replicate_number | 0..1 Integer |
The replicate number of the sample, if applicable | direct |
| sample_link | 0..1 String |
'A unique identifier to assign parent-child subsample or sibling samples | direct |
| sample_name | 0..1 String |
The name or label that is present on the shipped sample | direct |
| sample_processing | 0..1 String |
A brief description of any processing applied to the sample during or after r... | direct |
| samp_store_temp | 0..1 SampleStoreTempEnum |
The temperature at which your samples should be stored upon arrival | direct |
| sampled_during | 0..1 SamplingActivity |
Reference to the sampling activity during which this sample was collected | direct |
| source_mat_id | 0..1 String |
A unique identifier assigned to an original material sample collected or to a... | direct |
| storage_condition | 0..1 StorageConditionEnum |
The storage condition of the sample | direct |
| storage_condition_other | 0..1 String |
Free-text field for storage conditions when 'storage_condition' is 'other' | direct |
| technical_reps | 0..1 Integer |
Number of technical replicates for the sample | direct |
| temp | 0..1 String |
Temperature of the sample at the time of sampling | direct |
| id | 1 Uuid |
direct | |
| name | 1 String |
Human-readable name for the entity or activity | Sample |
| description | 0..1 String |
Human-readable description for the entity or activity | Sample |
| emsl_activity | 0..1 String |
Nullable string linking a Sample or SamplingActivity to a named EMSL activity... | Sample |
| lims_barcode | 0..1 String |
LIMS barcode identifier | Sample |
Identifier and Mapping Information
Schema Source
- from schema: https://EMSL-Computing.github.io/BASALT-Schema
Mappings
| Mapping Type | Mapped Value |
|---|---|
| self | basalt_schema:CommerciallyPurchasedSample |
| native | basalt_schema:CommerciallyPurchasedSample |
LinkML Source
Direct
name: CommerciallyPurchasedSample
description: A sample containing commercially purchased material.
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
is_a: Sample
slots:
- analysis_type
- cas
- compound_name
- experimental_factor
- experimental_factor_other
- external_identifiers
- item_number
- method_development
- other
- other_samp_store_temp
- other_storage_condt
- other_treatment
- oxygen_relationship
- production_method
- project
- replicate_number
- sample_link
- sample_name
- sample_processing
- samp_store_temp
- sampled_during
- source_mat_id
- storage_condition
- storage_condition_other
- technical_reps
- temp
slot_usage:
analysis_type:
name: analysis_type
required: true
compound_name:
name: compound_name
required: true
attributes:
id:
name: id
from_schema: https://EMSL-Computing.github.io/BASALT-Schema/sample-classes
identifier: true
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
Induced
name: CommerciallyPurchasedSample
description: A sample containing commercially purchased material.
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
is_a: Sample
slot_usage:
analysis_type:
name: analysis_type
required: true
compound_name:
name: compound_name
required: true
attributes:
id:
name: id
from_schema: https://EMSL-Computing.github.io/BASALT-Schema/sample-classes
identifier: true
alias: id
owner: CommerciallyPurchasedSample
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
analysis_type:
name: analysis_type
description: The type(s) of analysis planned for this sample.
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: analysis_type
owner: CommerciallyPurchasedSample
domain_of:
- SampleProcessing
- AerosolArmSample
- AerosolSample
- AMP2UserSample
- CommerciallyPurchasedSample
- CultureEnvironmentalSample
- FieldDeployedTerraformSample
- MixedCultureSample
- OtherUndescribedSample
- PlantSample
- PureCultureSample
- SedimentSample
- SoilSample
- SynthesizedMaterialSample
- TerraformSample
- WaterSample
range: string
required: true
cas:
name: cas
description: A unique numerical identifier assigned by the Chemical Abstract Service
(CAS), a division of the American Chemical Society, to chemical compounds, polymers,
biological sequences, mixtures, and alloys.
title: CAS number
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
aliases:
- CAS
rank: 1000
alias: cas
owner: CommerciallyPurchasedSample
domain_of:
- CommerciallyPurchasedSample
- OtherUndescribedSample
- SynthesizedMaterialSample
range: string
compound_name:
name: compound_name
description: The name of the purchased material. A substance formed by chemical
union of two or more elements or ingredients in definite proportion by weight.
title: compound name
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: compound_name
owner: CommerciallyPurchasedSample
domain_of:
- CommerciallyPurchasedSample
- OtherUndescribedSample
- SynthesizedMaterialSample
range: string
required: true
experimental_factor:
name: experimental_factor
description: Experimental factors are essentially the variable aspects of an experiment
design which can be used to describe an experiment or set of experiments in
an increasingly detailed manner. This field accepts ontology terms from Experimental
Factor Ontology (EFO) and/or Ontology for Biomedical Investigations (OBI). For
a browser of EFO (v 2.95) terms please see http://purl.bioontology.org/ontology/EFO;
for a browser of OBI (v 2018-02-12) terms please see http://purl.bioontology.org/ontology/OBI
title: experimental factor
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: experimental_factor
owner: CommerciallyPurchasedSample
domain_of:
- AerosolArmSample
- AerosolSample
- CommerciallyPurchasedSample
- CultureEnvironmentalSample
- MixedCultureSample
- OtherUndescribedSample
- PlantSample
- PureCultureSample
- SedimentSample
- SoilSample
- SynthesizedMaterialSample
- WaterSample
range: string
experimental_factor_other:
name: experimental_factor_other
description: Other details about your sample that you feel can't be accurately
represented in the available columns.
title: other experimental factor
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: experimental_factor_other
owner: CommerciallyPurchasedSample
domain_of:
- AerosolArmSample
- AerosolSample
- CommerciallyPurchasedSample
- CultureEnvironmentalSample
- MixedCultureSample
- OtherUndescribedSample
- PlantSample
- PureCultureSample
- SedimentSample
- SoilSample
- SynthesizedMaterialSample
- WaterSample
range: string
external_identifiers:
name: external_identifiers
description: List of external identifiers associated with this entity or activity.
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: external_identifiers
owner: CommerciallyPurchasedSample
domain_of:
- NucleotideSequencing
- AerosolArmSample
- AerosolSample
- CommerciallyPurchasedSample
- CultureEnvironmentalSample
- EngineeredStrainSample
- FieldDeployedTerraformSample
- MixedCultureSample
- MonetSoilSample
- OtherUndescribedSample
- PlantSample
- PureCultureSample
- SedimentSample
- SoilSample
- SynthesizedMaterialSample
- TerraformSample
- WaterSample
- Study
range: uriorcurie
multivalued: true
item_number:
name: item_number
description: The item number of the purchased material
title: item number
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: item_number
owner: CommerciallyPurchasedSample
domain_of:
- CommerciallyPurchasedSample
- OtherUndescribedSample
- SynthesizedMaterialSample
range: string
method_development:
name: method_development
description: If your samples are TEST sample ONLY, please provide information
on what you're hoping this test will resolve.
title: method development
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: method_development
owner: CommerciallyPurchasedSample
domain_of:
- AerosolArmSample
- AerosolSample
- CommerciallyPurchasedSample
- CultureEnvironmentalSample
- FieldDeployedTerraformSample
- MixedCultureSample
- OtherUndescribedSample
- PlantSample
- PureCultureSample
- SedimentSample
- SoilSample
- TerraformSample
- WaterSample
range: string
other:
name: other
description: Other/additional details about your sample that you feel can't be
accurately represented in ANY of the available columns.
title: other
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: other
owner: CommerciallyPurchasedSample
domain_of:
- AerosolArmSample
- AerosolSample
- CommerciallyPurchasedSample
- CultureEnvironmentalSample
- FieldDeployedTerraformSample
- MixedCultureSample
- MonetSoilSample
- OtherUndescribedSample
- PlantSample
- PureCultureSample
- SedimentSample
- SoilSample
- SynthesizedMaterialSample
- TerraformSample
- WaterSample
range: string
other_samp_store_temp:
name: other_samp_store_temp
description: Please specify sample storage temperature if you selected 'other'
title: other sample storage temperature
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: other_samp_store_temp
owner: CommerciallyPurchasedSample
domain_of:
- AerosolArmSample
- AerosolSample
- CommerciallyPurchasedSample
- CultureEnvironmentalSample
- FieldDeployedTerraformSample
- MixedCultureSample
- MonetSoilSample
- OtherUndescribedSample
- PlantSample
- PureCultureSample
- SedimentSample
- SoilSample
- SynthesizedMaterialSample
- TerraformSample
- WaterSample
range: string
other_storage_condt:
name: other_storage_condt
description: Please specify your storage conditions if you selected 'other' and
the available values are not appropriate
title: other storage condition
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: other_storage_condt
owner: CommerciallyPurchasedSample
domain_of:
- AerosolSample
- CommerciallyPurchasedSample
- CultureEnvironmentalSample
- FieldDeployedTerraformSample
- MixedCultureSample
- MonetSoilSample
- PlantSample
- PureCultureSample
- SedimentSample
- SoilSample
- SynthesizedMaterialSample
- TerraformSample
- WaterSample
range: string
other_treatment:
name: other_treatment
description: Many sample treatment descriptor columns are available. If a treatment
is applied to your samples and the provided treatment terms do not satisfy please
add it here. Multiple treatments can be entered here separated by ;
title: other treatment
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: other_treatment
owner: CommerciallyPurchasedSample
domain_of:
- AerosolArmSample
- AerosolSample
- CommerciallyPurchasedSample
- CultureEnvironmentalSample
- FieldDeployedTerraformSample
- MixedCultureSample
- MonetSoilSample
- OtherUndescribedSample
- PlantSample
- PureCultureSample
- SedimentSample
- SoilSample
- TerraformSample
- WaterSample
range: string
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: CommerciallyPurchasedSample
domain_of:
- HasIncubationConditions
- CommerciallyPurchasedSample
- CultureEnvironmentalSample
- FieldDeployedTerraformSample
- MixedCultureSample
- OtherUndescribedSample
- PureCultureSample
- SedimentSample
- SoilSample
- SynthesizedMaterialSample
- TerraformSample
- WaterSample
range: OxygenStatusEnum
production_method:
name: production_method
description: A DOI or description of how the compound was produced, if the commercially
purchased material was altered
title: production method
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: production_method
owner: CommerciallyPurchasedSample
domain_of:
- CommerciallyPurchasedSample
- OtherUndescribedSample
- SynthesizedMaterialSample
range: string
project:
name: project
description: 'Identifier for the user project associated with the entity or activity. '
title: Project
todos:
- should this be an ID? CURIE can use the one NMDC has https://bioregistry.io/reference/emsl.project:60141
where emsl.project is the CURIE prefix
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
aliases:
- study
- study_id
- project_id
- proposal
- proposal_id
rank: 1000
alias: project
owner: CommerciallyPurchasedSample
domain_of:
- DataProduct
- AerosolArmSample
- AerosolSample
- CommerciallyPurchasedSample
- CultureEnvironmentalSample
- FieldDeployedTerraformSample
- MixedCultureSample
- MonetSoilSample
- OtherUndescribedSample
- PlantSample
- PureCultureSample
- SedimentSample
- SoilSample
- SynthesizedMaterialSample
- TerraformSample
- WaterSample
- SamplingActivity
range: integer
replicate_number:
name: replicate_number
description: The replicate number of the sample, if applicable. Included for compatibility
with submission schema.
todos:
- reconcile replicate modelling
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: replicate_number
owner: CommerciallyPurchasedSample
domain_of:
- AerosolArmSample
- AerosolSample
- CommerciallyPurchasedSample
- CultureEnvironmentalSample
- FieldDeployedTerraformSample
- MixedCultureSample
- OtherUndescribedSample
- PlantSample
- PureCultureSample
- SedimentSample
- SoilSample
- SynthesizedMaterialSample
- TerraformSample
- WaterSample
range: integer
sample_link:
name: sample_link
description: '''A unique identifier to assign parent-child subsample or sibling
samples. This is relevant when a sample or other material was used to generate
the new sample. This field allows multiple entries separated by ; (Examples:
Soil collected from the field will link with the soil used in an incubation.
The soil a plant was grown in links to the plant sample. An original culture
sample was transferred to a new vial and generated a new sample)'''
todos:
- EMSL and NMDC both need better modelling for this
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: sample_link
owner: CommerciallyPurchasedSample
domain_of:
- AerosolArmSample
- AerosolSample
- CommerciallyPurchasedSample
- CultureEnvironmentalSample
- FieldDeployedTerraformSample
- MixedCultureSample
- OtherUndescribedSample
- PlantSample
- PureCultureSample
- SedimentSample
- SoilSample
- SynthesizedMaterialSample
- TerraformSample
- WaterSample
range: string
sample_name:
name: sample_name
description: 'The name or label that is present on the shipped sample. This should
be a human readable name.'
title: sample name
notes:
- This is typically an alias for the inherited 'name' slot on Sample classes.
Defined separately for compatibility with source data files using 'sample_name'
column headers.
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
aliases:
- samp_name
rank: 1000
alias: sample_name
owner: CommerciallyPurchasedSample
domain_of:
- DataProduct
- AerosolArmSample
- AerosolSample
- CommerciallyPurchasedSample
- CultureEnvironmentalSample
- FieldDeployedTerraformSample
- MixedCultureSample
- MonetSoilSample
- OtherUndescribedSample
- PlantSample
- PureCultureSample
- SedimentSample
- SoilSample
- SynthesizedMaterialSample
- TerraformSample
- WaterSample
range: string
sample_processing:
name: sample_processing
description: A brief description of any processing applied to the sample during
or after retrieving the sample from environment or a link to the relevant protocol(s)
performed.
title: sample processing
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: sample_processing
owner: CommerciallyPurchasedSample
domain_of:
- AerosolArmSample
- AerosolSample
- CommerciallyPurchasedSample
- CultureEnvironmentalSample
- FieldDeployedTerraformSample
- MixedCultureSample
- OtherUndescribedSample
- PlantSample
- PureCultureSample
- SedimentSample
- SoilSample
- SynthesizedMaterialSample
- TerraformSample
range: string
samp_store_temp:
name: samp_store_temp
description: The temperature at which your samples should be stored upon arrival.
This field is NOT multivalued. If selecting other add the `other_samp_store_temp`
attribute to provide additional detail.
title: sample storage temperature
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
aliases:
- sample_storage_temperature
- storage_temperature
rank: 1000
alias: samp_store_temp
owner: CommerciallyPurchasedSample
domain_of:
- AerosolArmSample
- AerosolSample
- CommerciallyPurchasedSample
- CultureEnvironmentalSample
- FieldDeployedTerraformSample
- MixedCultureSample
- MonetSoilSample
- OtherUndescribedSample
- PlantSample
- PureCultureSample
- SedimentSample
- SoilSample
- SynthesizedMaterialSample
- TerraformSample
- WaterSample
range: SampleStoreTempEnum
sampled_during:
name: sampled_during
description: Reference to the sampling activity during which this sample was collected.
This is a FK to the SamplingActivity class, which contains metadata about the
sampling event, such as date, device, method.
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: sampled_during
owner: CommerciallyPurchasedSample
domain_of:
- AerosolArmSample
- AerosolSample
- CommerciallyPurchasedSample
- CultureEnvironmentalSample
- FieldDeployedTerraformSample
- MixedCultureSample
- MonetSoilSample
- OtherUndescribedSample
- PlantSample
- PureCultureSample
- SedimentSample
- SoilSample
- SynthesizedMaterialSample
- TerraformSample
- WaterSample
- ProcessedSample
range: SamplingActivity
source_mat_id:
name: source_mat_id
description: A unique identifier assigned to an original material sample collected
or to any derived sub-samples. The source material should be listed as a sample
to inform details about parent material relationship.
title: source material identifier
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: source_mat_id
owner: CommerciallyPurchasedSample
domain_of:
- AerosolArmSample
- AerosolSample
- CommerciallyPurchasedSample
- CultureEnvironmentalSample
- FieldDeployedTerraformSample
- MixedCultureSample
- OtherUndescribedSample
- PlantSample
- PureCultureSample
- SedimentSample
- SoilSample
- SynthesizedMaterialSample
- TerraformSample
- WaterSample
range: string
storage_condition:
name: storage_condition
description: The storage condition of the sample. This field is NOT multivalued.
If selecting other add the `other_storage_condt` attribute to provide additional
detail.
title: storage condition
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
aliases:
- samp_store_cond
- storage_cond
- storage_condt
exact_mappings:
- MIXS:0000327
rank: 1000
alias: storage_condition
owner: CommerciallyPurchasedSample
domain_of:
- AerosolArmSample
- AerosolSample
- AMP2UserSample
- CommerciallyPurchasedSample
- CultureEnvironmentalSample
- EngineeredStrainSample
- FieldDeployedTerraformSample
- MixedCultureSample
- MonetSoilSample
- OtherUndescribedSample
- PlantSample
- PureCultureSample
- SedimentSample
- SoilSample
- SynthesizedMaterialSample
- TerraformSample
- WaterSample
range: StorageConditionEnum
storage_condition_other:
name: storage_condition_other
description: Free-text field for storage conditions when 'storage_condition' is
'other'
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
aliases:
- other_storage_condt
- storage_condt_other
rank: 1000
alias: storage_condition_other
owner: CommerciallyPurchasedSample
domain_of:
- AerosolArmSample
- AerosolSample
- CommerciallyPurchasedSample
- CultureEnvironmentalSample
- FieldDeployedTerraformSample
- MixedCultureSample
- MonetSoilSample
- OtherUndescribedSample
- PlantSample
- PureCultureSample
- SedimentSample
- SoilSample
- SynthesizedMaterialSample
- TerraformSample
- WaterSample
range: string
technical_reps:
name: technical_reps
description: Number of technical replicates for the sample.
title: technical replicates
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: technical_reps
owner: CommerciallyPurchasedSample
domain_of:
- AerosolArmSample
- AerosolSample
- CommerciallyPurchasedSample
- CultureEnvironmentalSample
- FieldDeployedTerraformSample
- MixedCultureSample
- OtherUndescribedSample
- PlantSample
- PureCultureSample
- SedimentSample
- SoilSample
- SynthesizedMaterialSample
- TerraformSample
- WaterSample
range: integer
temp:
name: temp
description: 'Temperature of the sample at the time of sampling. (Units: C)'
title: temperature
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: temp
owner: CommerciallyPurchasedSample
domain_of:
- CommerciallyPurchasedSample
- FieldDeployedTerraformSample
- MonetSoilSample
- OtherUndescribedSample
- PlantSample
- SedimentSample
- SoilSample
- SynthesizedMaterialSample
- TerraformSample
- WaterSample
range: string
pattern: ^-?\d+(\.\d+)?\s*C$
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: CommerciallyPurchasedSample
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: CommerciallyPurchasedSample
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
emsl_activity:
name: emsl_activity
description: 'Nullable string linking a Sample or SamplingActivity to a named
EMSL activity or
campaign (e.g., ''AMP2'', ''MONet_FY26''). Optional for historical records
predating activity tracking.'
todos:
- Is sampling activity where we want to capture this?
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: emsl_activity
owner: CommerciallyPurchasedSample
domain_of:
- Sample
- SamplingActivity
range: string
required: false
lims_barcode:
name: lims_barcode
description: LIMS barcode identifier
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: lims_barcode
owner: CommerciallyPurchasedSample
domain_of:
- ProcessedData
- Sample
range: string
required: false