Class: WaterSample
A sample of water collected from the environment.
URI: basalt_schema:WaterSample
classDiagram
class WaterSample
click WaterSample href "../WaterSample/"
Sample <|-- WaterSample
click Sample href "../Sample/"
WaterSample : air_temp_regm
WaterSample : alkalinity
WaterSample : alkalinity_method
WaterSample : alkyl_diethers
WaterSample : aminopept_act
WaterSample : ammonium
WaterSample : analysis_type
WaterSample : bac_prod
WaterSample : bac_resp
WaterSample : bacteria_carb_prod
WaterSample : biotic_regm
WaterSample : bishomohopanol
WaterSample : bromide
WaterSample : calcium
WaterSample : carb_nitro_ratio
WaterSample : chem_administration
WaterSample : chloride
WaterSample : chlorophyll
WaterSample : conduc
WaterSample : density
WaterSample : depth
WaterSample : description
WaterSample : diether_lipids
WaterSample : diss_carb_dioxide
WaterSample : diss_hydrogen
WaterSample : diss_inorg_carb
WaterSample : diss_inorg_nitro
WaterSample : diss_inorg_phosp
WaterSample : diss_org_carb
WaterSample : diss_org_nitro
WaterSample : diss_oxygen
WaterSample : down_par
WaterSample : emsl_activity
WaterSample : env_broad_scale
WaterSample : env_local_scale
WaterSample : env_medium
WaterSample : experimental_factor
WaterSample : experimental_factor_other
WaterSample : external_identifiers
WaterSample : extraction_method
WaterSample : filter_method
WaterSample : fluor
WaterSample : gaseous_environment
WaterSample : glucosidase_act
WaterSample : id
WaterSample : isotope_exposure
WaterSample : latitude
WaterSample : light_intensity
WaterSample : lims_barcode
WaterSample : longitude
WaterSample : magnesium
WaterSample : mean_frict_vel
WaterSample : mean_peak_frict_vel
WaterSample : method_development
WaterSample : misc_param
WaterSample : n_alkanes
WaterSample : name
WaterSample : nitrate
WaterSample : nitrite
WaterSample : nitro
WaterSample : non_microb_biomass
WaterSample : non_microb_biomass_method
WaterSample : org_carb
WaterSample : org_matter
WaterSample : org_nitro
WaterSample : org_nitro_method
WaterSample : other
WaterSample : other_samp_store_temp
WaterSample : other_storage_condt
WaterSample : other_treatment
WaterSample : oxygen_relationship
WaterSample --> "0..1" OxygenStatusEnum : oxygen_relationship
click OxygenStatusEnum href "../OxygenStatusEnum/"
WaterSample : part_org_carb
WaterSample : part_org_nitro
WaterSample : perturbation
WaterSample : petroleum_hydrocarb
WaterSample : ph
WaterSample : ph_meth
WaterSample : phaeopigments
WaterSample : phosphate
WaterSample : phosplipid_fatt_acid
WaterSample : photon_flux
WaterSample : potassium
WaterSample : pressure
WaterSample : primary_prod
WaterSample : project
WaterSample : redox_potential
WaterSample : replicate_number
WaterSample : salinity
WaterSample : salinity_method
WaterSample : samp_store_temp
WaterSample --> "0..1" SampleStoreTempEnum : samp_store_temp
click SampleStoreTempEnum href "../SampleStoreTempEnum/"
WaterSample : sample_link
WaterSample : sample_name
WaterSample : sampled_during
WaterSample --> "0..1" SamplingActivity : sampled_during
click SamplingActivity href "../SamplingActivity/"
WaterSample : silicate
WaterSample : size_frac_low
WaterSample : size_frac_up
WaterSample : sodium
WaterSample : soluble_react_phosp
WaterSample : source_mat_id
WaterSample : start_date_inc
WaterSample : storage_condition
WaterSample --> "0..1" StorageConditionEnum : storage_condition
click StorageConditionEnum href "../StorageConditionEnum/"
WaterSample : storage_condition_other
WaterSample : sulfate
WaterSample : sulfide
WaterSample : suspend_part_matter
WaterSample : technical_reps
WaterSample : temp
WaterSample : tidal_stage
WaterSample --> "0..1" TidalStageEnum : tidal_stage
click TidalStageEnum href "../TidalStageEnum/"
WaterSample : tot_depth_water_col
WaterSample : tot_diss_nitro
WaterSample : tot_inorg_nitro
WaterSample : tot_nitro
WaterSample : tot_part_carb
WaterSample : tot_phosp
WaterSample : turbidity
WaterSample : water_current
Inheritance
- Sample
- WaterSample
Slots
| Name | Cardinality and Range | Description | Inheritance |
|---|---|---|---|
| air_temp_regm | 0..1 String |
Information about treatment involving an exposure to varying temperatures; sh... | direct |
| alkalinity | 0..1 String |
The ability of a solution to neutralize acids to the equivalence point of car... | direct |
| alkalinity_method | 0..1 String |
Method used for alkalinity measurement | direct |
| alkyl_diethers | 0..1 String |
Concentration of alkyl diethers | direct |
| aminopept_act | 0..1 String |
Measurement of aminopeptidase activity (Unit: mol/L/h) | direct |
| ammonium | 0..1 String |
Concentration of ammonium in the sample | direct |
| analysis_type | 1 String |
The type(s) of analysis planned for this sample | direct |
| bac_prod | 0..1 String |
Bacterial production in the water column measured by isotope uptake | direct |
| bac_resp | 0..1 String |
Measurement of bacterial respiration in the water column | direct |
| bacteria_carb_prod | 0..1 String |
Measurement of bacterial carbon production | direct |
| biotic_regm | 0..1 String |
Information about treatment(s) involving use of biotic factors such as bacter... | direct |
| bishomohopanol | 0..1 String |
Concentration of bishomohopanol | direct |
| bromide | 0..1 String |
Concentration of bromide (Unit: ppm) | direct |
| calcium | 0..1 String |
Concentration of calcium in the sample (Unit: mg/L or umol/L or ppm) | direct |
| carb_nitro_ratio | 0..1 String |
Ratio of amount or concentrations of carbon to nitrogen | direct |
| chem_administration | 0..1 String |
List of chemical compounds administered to the host or site where sampling oc... | direct |
| chloride | 0..1 String |
Concentration of chloride in the sample (Unit: mg/L or ppm) | direct |
| chlorophyll | 0..1 String |
Concentration of chlorophyll (Unit: mg/m3 or ug/L) | direct |
| conduc | 0..1 String |
Electrical conductivity of water | direct |
| density | 0..1 String |
Density of the sample, which is its mass per unit volume (aka volumetric mass... | direct |
| depth | 1 String |
The vertical distance below local surface of the water | direct |
| diether_lipids | 0..1 String |
Concentration of diether lipids; can include multiple types of diether lipids... | direct |
| diss_carb_dioxide | 0..1 String |
Concentration of dissolved carbon dioxide in the sample or liquid portion of ... | direct |
| diss_hydrogen | 0..1 String |
Concentration of dissolved hydrogens (Unit: umol/L) | direct |
| diss_inorg_carb | 0..1 String |
Dissolved inorganic carbon concentration in the sample, typically measured af... | direct |
| diss_inorg_nitro | 0..1 String |
Concentration of dissolved inorganic nitrogen | direct |
| diss_inorg_phosp | 0..1 String |
Concentration of dissolved inorganic phosphorus in the sample | direct |
| diss_org_carb | 0..1 String |
Concentration of dissolved organic carbon in the sample, liquid portion of th... | direct |
| diss_org_nitro | 0..1 String |
Dissolved organic nitrogen concentration measured as: total dissolved nitroge... | direct |
| diss_oxygen | 0..1 String |
Concentration of dissolved oxygen | direct |
| down_par | 0..1 String |
Visible waveband radiance and irradiance measurements in the water column | direct |
| env_broad_scale | 0..1 String |
'Report the major environmental system the sample or specimen came from | direct |
| env_local_scale | 0..1 String |
'Report the entity which are in your sample or specimens local vicinity and w... | direct |
| env_medium | 0..1 String |
'Report the environmental material immediately surrounding the sample or spec... | 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 |
| extraction_method | 0..1 String |
If you (the user) performed an extraction preparation or processing before se... | direct |
| filter_method | 1 String |
Type of filter used or how the sample was filtered | direct |
| fluor | 0..1 String |
Raw or converted fluorescence of water | direct |
| gaseous_environment | 0..1 String |
Use of conditions with differing gaseous environments; should include the nam... | direct |
| glucosidase_act | 0..1 String |
Measurement of glucosidase activity (Unit: mol/L/h) | direct |
| isotope_exposure | 0..1 String |
List isotope exposure or addition applied to your sample | direct |
| latitude | 1 Double |
Latitude coordinate of the sampling site in WSG 84 format | direct |
| longitude | 1 Double |
Longitude coordinate of the sampling site in WSG 84 format | direct |
| light_intensity | 0..1 String |
Measurement of light intensity | direct |
| magnesium | 0..1 String |
Concentration of magnesium in the sample (Unit: umol/kg or mol/L or mg/L or p... | direct |
| mean_frict_vel | 0..1 String |
Measurement of mean friction velocity (Unit: m/s) | direct |
| mean_peak_frict_vel | 0..1 String |
Measurement of mean peak friction velocity (Unit: m/s) | direct |
| method_development | 0..1 String |
If your samples are TEST sample ONLY, please provide information on what you'... | direct |
| misc_param | 0..1 String |
Any other measurement performed or parameter collected that is not listed her... | direct |
| n_alkanes | 0..1 String |
Concentration of n-alkanes; can include multiple n-alkanes (Unit: ug/mL) | direct |
| nitrate | 0..1 String |
Concentration of nitrate in the sample (Unit: umol/L or mg/L or ppm) | direct |
| nitrite | 0..1 String |
Concentration of nitrite in the sample (Unit: umol/L or mg/L or ppm) | direct |
| nitro | 0..1 String |
Concentration of nitrogen (total) (Unit: umol/L) | direct |
| non_microb_biomass | 0..1 String |
Amount of non-microbial biomass measured | direct |
| non_microb_biomass_method | 0..1 String |
Reference or method used in determining biomass | direct |
| org_carb | 0..1 String |
Concentration of organic carbon | direct |
| org_matter | 0..1 String |
Concentration of organic matter (Unit: mg/L) | direct |
| org_nitro | 0..1 String |
Concentration of organic nitrogen | direct |
| org_nitro_method | 0..1 String |
Method used for obtaining organic nitrogen | 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 |
| part_org_carb | 0..1 String |
Concentration of particulate organic carbon | direct |
| part_org_nitro | 0..1 String |
Concentration of particulate organic nitrogen | direct |
| perturbation | 0..1 String |
Type of perturbation, e | direct |
| petroleum_hydrocarb | 0..1 String |
Concentration of petroleum hydrocarbon (Unit: umol/L) | direct |
| ph | 0..1 Float |
pH measurement of the sample or liquid portion of sample or aqueous phase of ... | direct |
| ph_meth | 0..1 String |
Reference or method used in determining ph of the sample | direct |
| phaeopigments | 0..1 String |
Concentration of phaeopigments; can include multiple phaeopigments separated ... | direct |
| phosphate | 0..1 String |
Concentration of phosphate (Unit: umol/L) | direct |
| phosplipid_fatt_acid | 0..1 String |
Concentration of phospholipid fatty acids; can include multiple values separa... | direct |
| photon_flux | 0..1 String |
Measurement of photon flux | direct |
| potassium | 0..1 String |
Concentration of potassium in the sample (Unit: mg/L) | direct |
| pressure | 0..1 String |
Pressure to which the sample is subject, in atmospheres (Unit: atm) | direct |
| primary_prod | 0..1 String |
Measurement of primary production generally measured as isotope uptake | direct |
| project | 0..1 Integer |
Identifier for the user project associated with the entity or activity | direct |
| redox_potential | 0..1 String |
Redox potential measured relative to a hydrogen cell indicating oxidation or ... | direct |
| replicate_number | 0..1 Integer |
The replicate number of the sample, if applicable | direct |
| salinity | 0..1 String |
Salinity is the total concentration of all dissolved salts in a sample | direct |
| salinity_method | 0..1 String |
Method used to determine sample salinity | 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 |
| sampled_during | 0..1 SamplingActivity |
Reference to the sampling activity during which this sample was collected | direct |
| silicate | 0..1 String |
Concentration of silicate (Unit: umol/L) | direct |
| size_frac_low | 1 String |
Refers to the mesh/pore size used to retain the sample | direct |
| size_frac_up | 1 String |
Refers to the mesh/pore size used to pre-filter/pre-sort the sample | direct |
| sodium | 0..1 String |
Sodium concentration in the sample (Unit: ug/mL) | direct |
| soluble_react_phosp | 0..1 String |
Concentration of soluble reactive phosphorus | direct |
| source_mat_id | 0..1 String |
A unique identifier assigned to an original material sample collected or to a... | direct |
| start_date_inc | 0..1 String |
Date the incubation was started | 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 |
| sulfate | 0..1 String |
Concentration of sulfate in the sample | direct |
| sulfide | 0..1 String |
Concentration of sulfide in the sample | direct |
| samp_store_temp | 0..1 SampleStoreTempEnum |
The temperature at which your samples should be stored upon arrival | direct |
| suspend_part_matter | 0..1 String |
Concentration of suspended particulate matter | 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 |
| tidal_stage | 0..1 TidalStageEnum |
Stage of tide | direct |
| tot_depth_water_col | 0..1 String |
Measurement of total depth of water column (Unit: m) | direct |
| tot_diss_nitro | 0..1 String |
Total dissolved nitrogen concentration reported as nitrogen measured by: tota... | direct |
| tot_inorg_nitro | 0..1 String |
Total inorganic nitrogen content | direct |
| tot_nitro | 0..1 String |
Total nitrogen concentration of water samples calculated by: total nitrogen =... | direct |
| tot_part_carb | 0..1 String |
Total particulate carbon content | direct |
| tot_phosp | 0..1 String |
Total phosphorus concentration in the sample calculated by: total phosphorus ... | direct |
| turbidity | 0..1 String |
Measure of the amount of cloudiness or haziness in water caused by individual... | direct |
| water_current | 0..1 String |
Measurement of magnitude and direction of flow within a fluid | 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:WaterSample |
| native | basalt_schema:WaterSample |
LinkML Source
Direct
name: WaterSample
description: A sample of water collected from the environment.
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
is_a: Sample
slots:
- air_temp_regm
- alkalinity
- alkalinity_method
- alkyl_diethers
- aminopept_act
- ammonium
- analysis_type
- bac_prod
- bac_resp
- bacteria_carb_prod
- biotic_regm
- bishomohopanol
- bromide
- calcium
- carb_nitro_ratio
- chem_administration
- chloride
- chlorophyll
- conduc
- density
- depth
- diether_lipids
- diss_carb_dioxide
- diss_hydrogen
- diss_inorg_carb
- diss_inorg_nitro
- diss_inorg_phosp
- diss_org_carb
- diss_org_nitro
- diss_oxygen
- down_par
- env_broad_scale
- env_local_scale
- env_medium
- experimental_factor
- experimental_factor_other
- external_identifiers
- extraction_method
- filter_method
- fluor
- gaseous_environment
- glucosidase_act
- isotope_exposure
- latitude
- longitude
- light_intensity
- magnesium
- mean_frict_vel
- mean_peak_frict_vel
- method_development
- misc_param
- n_alkanes
- nitrate
- nitrite
- nitro
- non_microb_biomass
- non_microb_biomass_method
- org_carb
- org_matter
- org_nitro
- org_nitro_method
- other
- other_samp_store_temp
- other_storage_condt
- other_treatment
- oxygen_relationship
- part_org_carb
- part_org_nitro
- perturbation
- petroleum_hydrocarb
- ph
- ph_meth
- phaeopigments
- phosphate
- phosplipid_fatt_acid
- photon_flux
- potassium
- pressure
- primary_prod
- project
- redox_potential
- replicate_number
- salinity
- salinity_method
- sample_link
- sample_name
- sampled_during
- silicate
- size_frac_low
- size_frac_up
- sodium
- soluble_react_phosp
- source_mat_id
- start_date_inc
- storage_condition
- storage_condition_other
- sulfate
- sulfide
- samp_store_temp
- suspend_part_matter
- technical_reps
- temp
- tidal_stage
- tot_depth_water_col
- tot_diss_nitro
- tot_inorg_nitro
- tot_nitro
- tot_part_carb
- tot_phosp
- turbidity
- water_current
slot_usage:
analysis_type:
name: analysis_type
required: true
depth:
name: depth
description: 'The vertical distance below local surface of the water. (Units:
m)'
required: true
filter_method:
name: filter_method
required: true
latitude:
name: latitude
required: true
longitude:
name: longitude
required: true
non_microb_biomass:
name: non_microb_biomass
description: 'Amount of non-microbial biomass measured. Include the name for the
part of biomass measured, e.g. insect, plant, total. Provide value and unit,
any unit is valid. (example: insect 5mg; plant 2ug/mL)'
pattern: ^(\S+\s+\d+\s*\S+)(;\s*\S+\s+\d+\s*\S+)*$
size_frac_low:
name: size_frac_low
description: 'Refers to the mesh/pore size used to retain the sample. Materials
smaller than the size threshold are excluded from the sample (Unit: um)'
required: true
pattern: ^\d+(\.\d+)?\s*um$
size_frac_up:
name: size_frac_up
description: 'Refers to the mesh/pore size used to pre-filter/pre-sort the sample.
Materials larger than the size threshold are excluded from the sample (Unit:
um)'
required: true
pattern: ^\d+(\.\d+)?\s*um$
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: WaterSample
description: A sample of water collected from the environment.
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
is_a: Sample
slot_usage:
analysis_type:
name: analysis_type
required: true
depth:
name: depth
description: 'The vertical distance below local surface of the water. (Units:
m)'
required: true
filter_method:
name: filter_method
required: true
latitude:
name: latitude
required: true
longitude:
name: longitude
required: true
non_microb_biomass:
name: non_microb_biomass
description: 'Amount of non-microbial biomass measured. Include the name for the
part of biomass measured, e.g. insect, plant, total. Provide value and unit,
any unit is valid. (example: insect 5mg; plant 2ug/mL)'
pattern: ^(\S+\s+\d+\s*\S+)(;\s*\S+\s+\d+\s*\S+)*$
size_frac_low:
name: size_frac_low
description: 'Refers to the mesh/pore size used to retain the sample. Materials
smaller than the size threshold are excluded from the sample (Unit: um)'
required: true
pattern: ^\d+(\.\d+)?\s*um$
size_frac_up:
name: size_frac_up
description: 'Refers to the mesh/pore size used to pre-filter/pre-sort the sample.
Materials larger than the size threshold are excluded from the sample (Unit:
um)'
required: true
pattern: ^\d+(\.\d+)?\s*um$
attributes:
id:
name: id
from_schema: https://EMSL-Computing.github.io/BASALT-Schema/sample-classes
identifier: true
alias: id
owner: WaterSample
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
air_temp_regm:
name: air_temp_regm
description: Information about treatment involving an exposure to varying temperatures;
should include the temperature, treatment regimen including how many times the
treatment was repeated, how long each treatment lasted, and the start and end
time of the entire treatment; can include different temperature regimens
title: air temperature regimen
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
exact_mappings:
- MIXS:0000551
rank: 1000
alias: air_temp_regm
owner: WaterSample
domain_of:
- AerosolArmSample
- AerosolSample
- CultureEnvironmentalSample
- FieldDeployedTerraformSample
- MixedCultureSample
- OtherUndescribedSample
- PlantSample
- PureCultureSample
- SedimentSample
- SoilSample
- TerraformSample
- WaterSample
range: string
alkalinity:
name: alkalinity
description: 'The ability of a solution to neutralize acids to the equivalence
point of carbonate or bicarbonate (Unit: mg/L or meq/L)'
title: alkalinity
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: alkalinity
owner: WaterSample
domain_of:
- OtherUndescribedSample
- SedimentSample
- WaterSample
range: string
pattern: ^\d+(\.\d+)?\s*(mg|meq)/L$
alkalinity_method:
name: alkalinity_method
description: Method used for alkalinity measurement
title: alkalinity method
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: alkalinity_method
owner: WaterSample
domain_of:
- OtherUndescribedSample
- SedimentSample
- WaterSample
range: string
alkyl_diethers:
name: alkyl_diethers
description: Concentration of alkyl diethers. Provide value and unit, any unit
is valid
title: alkyl diethers
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: alkyl_diethers
owner: WaterSample
domain_of:
- OtherUndescribedSample
- SedimentSample
- WaterSample
range: string
pattern: ^\d+(\.\d+)?\s*[\w\s/]+$
aminopept_act:
name: aminopept_act
description: 'Measurement of aminopeptidase activity (Unit: mol/L/h)'
title: aminopeptidase activity
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: aminopept_act
owner: WaterSample
domain_of:
- OtherUndescribedSample
- SedimentSample
- WaterSample
range: string
pattern: ^\d+(\.\d+)?\s*mol/L/h$
ammonium:
name: ammonium
description: 'Concentration of ammonium in the sample. (Units: umol/L or mg/Liter
or ppm)'
title: ammonium
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: ammonium
owner: WaterSample
domain_of:
- OtherUndescribedSample
- SedimentSample
- WaterSample
range: string
pattern: ^\d+(\.\d+)?\s*(umol/L|mg/L|ppm)$
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: WaterSample
domain_of:
- SampleProcessing
- AerosolArmSample
- AerosolSample
- AMP2UserSample
- CommerciallyPurchasedSample
- CultureEnvironmentalSample
- FieldDeployedTerraformSample
- MixedCultureSample
- OtherUndescribedSample
- PlantSample
- PureCultureSample
- SedimentSample
- SoilSample
- SynthesizedMaterialSample
- TerraformSample
- WaterSample
range: string
required: true
bac_prod:
name: bac_prod
description: Bacterial production in the water column measured by isotope uptake.
Provide value and unit, any unit is valid.
title: bacterial production
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: bac_prod
owner: WaterSample
domain_of:
- OtherUndescribedSample
- WaterSample
range: string
pattern: ^\d+(\.\d+)?\s*[\w\s/]+$
bac_resp:
name: bac_resp
description: Measurement of bacterial respiration in the water column. Provide
value and unit,any unit is valid.
title: bacterial respiration
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: bac_resp
owner: WaterSample
domain_of:
- OtherUndescribedSample
- WaterSample
range: string
pattern: ^\d+(\.\d+)?\s*[\w\s/]+$
bacteria_carb_prod:
name: bacteria_carb_prod
description: Measurement of bacterial carbon production. Provide value and unit,
any unit is valid
title: bacterial carbon production
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: bacteria_carb_prod
owner: WaterSample
domain_of:
- OtherUndescribedSample
- SedimentSample
- WaterSample
range: string
pattern: ^\d+(\.\d+)?\s*[\w\s/]+$
biotic_regm:
name: biotic_regm
description: Information about treatment(s) involving use of biotic factors such
as bacteria, viruses, or fungi.
title: biotic regimen
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: biotic_regm
owner: WaterSample
domain_of:
- CultureEnvironmentalSample
- FieldDeployedTerraformSample
- MixedCultureSample
- OtherUndescribedSample
- PlantSample
- PureCultureSample
- SedimentSample
- SoilSample
- TerraformSample
- WaterSample
range: string
bishomohopanol:
name: bishomohopanol
description: 'Concentration of bishomohopanol. (Unit: ug/L or ug/g)'
title: bishomohopanol
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: bishomohopanol
owner: WaterSample
domain_of:
- OtherUndescribedSample
- SedimentSample
- WaterSample
range: string
pattern: ^\d+(\.\d+)?\s*(ug/L|ug/g)$
bromide:
name: bromide
description: 'Concentration of bromide (Unit: ppm)'
title: bromide
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: bromide
owner: WaterSample
domain_of:
- OtherUndescribedSample
- SedimentSample
- WaterSample
range: string
pattern: ^\d+(\.\d+)?\s*ppm$
calcium:
name: calcium
description: 'Concentration of calcium in the sample (Unit: mg/L or umol/L or
ppm)'
title: calcium
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: calcium
owner: WaterSample
domain_of:
- OtherUndescribedSample
- SedimentSample
- WaterSample
range: string
pattern: ^\d+(\.\d+)?\s*(mg/L|umol/L|ppm)$
carb_nitro_ratio:
name: carb_nitro_ratio
description: Ratio of amount or concentrations of carbon to nitrogen.
title: carbon nitrogen ratio
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: carb_nitro_ratio
owner: WaterSample
domain_of:
- OtherUndescribedSample
- SedimentSample
- WaterSample
range: string
chem_administration:
name: chem_administration
description: List of chemical compounds administered to the host or site where
sampling occurred, and when (e.g. Antibiotics, n fertilizer, air filter); can
include multiple compounds. For chemical entities of biological interest ontology
(chebi) (v 163), http://purl.bioontology.org/ontology/chebi
title: chemical administration
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
exact_mappings:
- MIXS:0000751
rank: 1000
alias: chem_administration
owner: WaterSample
domain_of:
- AerosolArmSample
- AerosolSample
- CultureEnvironmentalSample
- FieldDeployedTerraformSample
- MixedCultureSample
- MonetSoilSample
- OtherUndescribedSample
- PlantSample
- PureCultureSample
- SedimentSample
- SoilSample
- TerraformSample
- WaterSample
range: string
chloride:
name: chloride
description: 'Concentration of chloride in the sample (Unit: mg/L or ppm)'
title: chloride
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: chloride
owner: WaterSample
domain_of:
- OtherUndescribedSample
- SedimentSample
- WaterSample
range: string
pattern: ^\d+(\.\d+)?\s*(mg/L|ppm)$
chlorophyll:
name: chlorophyll
description: 'Concentration of chlorophyll (Unit: mg/m3 or ug/L)'
title: chlorophyll
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: chlorophyll
owner: WaterSample
domain_of:
- OtherUndescribedSample
- SedimentSample
- WaterSample
range: string
pattern: ^\d+(\.\d+)?\s*(mg/m3|ug/L)$
conduc:
name: conduc
description: Electrical conductivity of water. Provide value and unit, any unit
is valid.
title: conductivity
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: conduc
owner: WaterSample
domain_of:
- OtherUndescribedSample
- WaterSample
range: string
pattern: ^\d+(\.\d+)?\s*[\w\s/]+$
density:
name: density
description: 'Density of the sample, which is its mass per unit volume (aka volumetric
mass density) (Unit: g/m3 or g/cm3)'
title: density
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: density
owner: WaterSample
domain_of:
- OtherUndescribedSample
- SedimentSample
- WaterSample
range: string
pattern: ^\d+(\.\d+)?\s*(g/m3|g/cm3)$
depth:
name: depth
description: 'The vertical distance below local surface of the water. (Units:
m)'
title: depth
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: depth
owner: WaterSample
domain_of:
- FieldDeployedTerraformSample
- MonetSoilSample
- OtherUndescribedSample
- SedimentSample
- SoilSample
- WaterSample
range: string
required: true
pattern: ^\d+(\.\d+)?(-\d+(\.\d+)?)?\s*m$
diether_lipids:
name: diether_lipids
description: 'Concentration of diether lipids; can include multiple types of diether
lipids (Unit: ng/L)'
title: diether lipids
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: diether_lipids
owner: WaterSample
domain_of:
- OtherUndescribedSample
- SedimentSample
- WaterSample
range: string
pattern: ^\d+(\.\d+)?\s*ng/L$
diss_carb_dioxide:
name: diss_carb_dioxide
description: 'Concentration of dissolved carbon dioxide in the sample or liquid
portion of the sample (Unit: umol/L or mg/L)'
title: dissolved carbon dioxide
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: diss_carb_dioxide
owner: WaterSample
domain_of:
- OtherUndescribedSample
- SedimentSample
- WaterSample
range: string
pattern: ^\d+(\.\d+)?\s*(umol|mg)/L$
diss_hydrogen:
name: diss_hydrogen
description: 'Concentration of dissolved hydrogens (Unit: umol/L)'
title: dissolved hydrogen
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: diss_hydrogen
owner: WaterSample
domain_of:
- OtherUndescribedSample
- SedimentSample
- WaterSample
range: string
pattern: ^\d+(\.\d+)?\s*umol/L$
diss_inorg_carb:
name: diss_inorg_carb
description: 'Dissolved inorganic carbon concentration in the sample, typically
measured after filtering the sample using a 0.45 micrometer filter (Unit: ug/L
or mg/L or ppm)'
title: dissolved inorganic carbon
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: diss_inorg_carb
owner: WaterSample
domain_of:
- OtherUndescribedSample
- SedimentSample
- WaterSample
range: string
pattern: ^\d+(\.\d+)?\s*(ug/L|mg/L|ppm)$
diss_inorg_nitro:
name: diss_inorg_nitro
description: 'Concentration of dissolved inorganic nitrogen. (Unit: ug/L or umol/L)'
title: dissolved inorganic nitrogen
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: diss_inorg_nitro
owner: WaterSample
domain_of:
- OtherUndescribedSample
- WaterSample
range: string
pattern: ^\d+(\.\d+)?\s*(umol/L|ug/L)$
diss_inorg_phosp:
name: diss_inorg_phosp
description: Concentration of dissolved inorganic phosphorus in the sample. Provide
value and unit, any unit is valid.
title: dissolved inorganic phosphate
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: diss_inorg_phosp
owner: WaterSample
domain_of:
- OtherUndescribedSample
- WaterSample
range: string
pattern: ^\d+(\.\d+)?\s*[\w\s/]+$
diss_org_carb:
name: diss_org_carb
description: 'Concentration of dissolved organic carbon in the sample, liquid
portion of the sample, or aqueous phase of the fluid. (Unit: umol/L or mg/L)'
title: dissolved organic carbon
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: diss_org_carb
owner: WaterSample
domain_of:
- OtherUndescribedSample
- SedimentSample
- WaterSample
range: string
pattern: ^\d+(\.\d+)?\s*(umol/L|mg/L)$
diss_org_nitro:
name: diss_org_nitro
description: 'Dissolved organic nitrogen concentration measured as: total dissolved
nitrogen - NH4 - NO3 - NO2. Provide value and unit, any unit is valid'
title: dissolved organic nitrogen
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: diss_org_nitro
owner: WaterSample
domain_of:
- OtherUndescribedSample
- SedimentSample
- WaterSample
range: string
pattern: ^\d+(\.\d+)?\s*[\w\s/]+$
diss_oxygen:
name: diss_oxygen
description: 'Concentration of dissolved oxygen. (Unit: umol/kg or mg/L)'
title: dissolved oxygen
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: diss_oxygen
owner: WaterSample
domain_of:
- OtherUndescribedSample
- SedimentSample
- WaterSample
range: string
pattern: ^\d+(\.\d+)?\s*(umol/kg|mg/L)$
down_par:
name: down_par
description: Visible waveband radiance and irradiance measurements in the water
column. Provide value and unit, any unit is valid.
title: downward PAR
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: down_par
owner: WaterSample
domain_of:
- OtherUndescribedSample
- WaterSample
range: string
pattern: ^\d+(\.\d+)?\s*[\w\s/]+$
env_broad_scale:
name: env_broad_scale
description: '''Report the major environmental system the sample or specimen came
from. The system identified should have a coarse spatial grain to provide the
general environmental context of where the sampling was done (e.g. in the desert
or a rainforest). We recommend using subclasses of EnvO''''s biome class: http://purl.obolibrary.org/obo/ENVO_00000428.
EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS'''
title: broad-scale environmental context
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: env_broad_scale
owner: WaterSample
domain_of:
- AerosolArmSample
- AerosolSample
- CultureEnvironmentalSample
- FieldDeployedTerraformSample
- MonetSoilSample
- OtherUndescribedSample
- PlantSample
- PureCultureSample
- SedimentSample
- SoilSample
- TerraformSample
- WaterSample
range: string
pattern: ^_*\s*[a-zA-Z\s]+\[ENVO:\d+\]$
env_local_scale:
name: env_local_scale
description: '''Report the entity which are in your sample or specimens local
vicinity and which you believe have significant causal influences on your sample
or specimen. Please use terms that are present in ENVO and which are of smaller
spatial grain than your entry for env_broad_scale.If needed, request new terms
on the ENVO tracker identified here: http://www.obofoundry.org/ontology/envo.html'''
title: local environmental context
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: env_local_scale
owner: WaterSample
domain_of:
- AerosolArmSample
- AerosolSample
- CultureEnvironmentalSample
- FieldDeployedTerraformSample
- MonetSoilSample
- OtherUndescribedSample
- PlantSample
- PureCultureSample
- SedimentSample
- SoilSample
- TerraformSample
- WaterSample
range: string
pattern: ^_*\s*[a-zA-Z\s]+\[ENVO:\d+\]$
env_medium:
name: env_medium
description: '''Report the environmental material immediately surrounding the
sample or specimen at the time of sampling. We recommend using subclasses of
''''environmental material'''' (http://purl.obolibrary.org/obo/ENVO_00010483).
EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS.'''
title: environmental medium
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: env_medium
owner: WaterSample
domain_of:
- AerosolArmSample
- AerosolSample
- CultureEnvironmentalSample
- FieldDeployedTerraformSample
- MonetSoilSample
- OtherUndescribedSample
- PlantSample
- PureCultureSample
- SedimentSample
- SoilSample
- TerraformSample
- WaterSample
range: string
pattern: ^_*\s*[a-zA-Z\s]+\[ENVO:\d+\]$
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: WaterSample
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: WaterSample
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: WaterSample
domain_of:
- NucleotideSequencing
- AerosolArmSample
- AerosolSample
- CommerciallyPurchasedSample
- CultureEnvironmentalSample
- EngineeredStrainSample
- FieldDeployedTerraformSample
- MixedCultureSample
- MonetSoilSample
- OtherUndescribedSample
- PlantSample
- PureCultureSample
- SedimentSample
- SoilSample
- SynthesizedMaterialSample
- TerraformSample
- WaterSample
- Study
range: uriorcurie
multivalued: true
extraction_method:
name: extraction_method
description: If you (the user) performed an extraction preparation or processing
before sending the sample to EMSL, what was it? This is only applicable when
sending an 'analytical sample'. See README for more details on types of samples.
title: extraction method
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: extraction_method
owner: WaterSample
domain_of:
- PhosphorusAnalysisProduct
- AerosolArmSample
- AerosolSample
- CultureEnvironmentalSample
- MixedCultureSample
- OtherUndescribedSample
- PlantSample
- PureCultureSample
- SedimentSample
- SoilSample
- WaterSample
range: string
filter_method:
name: filter_method
description: Type of filter used or how the sample was filtered
title: filter method
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: filter_method
owner: WaterSample
domain_of:
- CultureEnvironmentalSample
- OtherUndescribedSample
- PureCultureSample
- SoilSample
- WaterSample
range: string
required: true
fluor:
name: fluor
description: Raw or converted fluorescence of water. Provide value and unit, any
unit is valid.
title: fluorescence
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: fluor
owner: WaterSample
domain_of:
- OtherUndescribedSample
- WaterSample
range: string
pattern: ^\d+(\.\d+)?\s*[\w\s/]+$
gaseous_environment:
name: gaseous_environment
description: Use of conditions with differing gaseous environments; should include
the name of gaseous compound, amount administered, treatment duration, interval,
and total experimental duration; can include multiple gaseous environment regimens
title: gaseous environment
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: gaseous_environment
owner: WaterSample
domain_of:
- CultureEnvironmentalSample
- FieldDeployedTerraformSample
- MixedCultureSample
- OtherUndescribedSample
- PlantSample
- PureCultureSample
- SedimentSample
- SoilSample
- TerraformSample
- WaterSample
range: string
glucosidase_act:
name: glucosidase_act
description: 'Measurement of glucosidase activity (Unit: mol/L/h)'
title: glucosidase activity
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: glucosidase_act
owner: WaterSample
domain_of:
- OtherUndescribedSample
- SedimentSample
- WaterSample
range: string
pattern: ^\d+(\.\d+)?\s*mol/L/h$
isotope_exposure:
name: isotope_exposure
description: List isotope exposure or addition applied to your sample.
title: isotope exposure
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: isotope_exposure
owner: WaterSample
domain_of:
- AerosolArmSample
- AerosolSample
- CultureEnvironmentalSample
- FieldDeployedTerraformSample
- MixedCultureSample
- OtherUndescribedSample
- PlantSample
- PureCultureSample
- SedimentSample
- SoilSample
- TerraformSample
- WaterSample
range: string
latitude:
name: latitude
description: Latitude coordinate of the sampling site in WSG 84 format.
title: latitude
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
broad_mappings:
- MIXS:0000009
rank: 1000
alias: latitude
owner: WaterSample
domain_of:
- Site
- AerosolArmSample
- AerosolSample
- CultureEnvironmentalSample
- FieldDeployedTerraformSample
- MonetSoilSample
- OtherUndescribedSample
- PlantSample
- SedimentSample
- SoilSample
- WaterSample
range: double
required: true
longitude:
name: longitude
description: Longitude coordinate of the sampling site in WSG 84 format.
title: longitude
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
broad_mappings:
- MIXS:0000009
rank: 1000
alias: longitude
owner: WaterSample
domain_of:
- Site
- AerosolArmSample
- AerosolSample
- CultureEnvironmentalSample
- FieldDeployedTerraformSample
- MonetSoilSample
- OtherUndescribedSample
- PlantSample
- SedimentSample
- SoilSample
- WaterSample
range: double
required: true
light_intensity:
name: light_intensity
description: Measurement of light intensity. Provide value and unit, any unit
is valid.
title: light intensity
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: light_intensity
owner: WaterSample
domain_of:
- OtherUndescribedSample
- WaterSample
range: string
pattern: ^\d+(\.\d+)?\s*[\w\s/]+$
magnesium:
name: magnesium
description: 'Concentration of magnesium in the sample (Unit: umol/kg or mol/L
or mg/L or ppm)'
title: magnesium
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: magnesium
owner: WaterSample
domain_of:
- OtherUndescribedSample
- SedimentSample
- WaterSample
range: string
pattern: ^\d+(\.\d+)?\s*(umol/kg|mol/L|mg/L|ppm)$
mean_frict_vel:
name: mean_frict_vel
description: 'Measurement of mean friction velocity (Unit: m/s)'
title: mean friction velocity
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: mean_frict_vel
owner: WaterSample
domain_of:
- OtherUndescribedSample
- SedimentSample
- WaterSample
range: string
pattern: ^\d+(\.\d+)?\s*m/s$
mean_peak_frict_vel:
name: mean_peak_frict_vel
description: 'Measurement of mean peak friction velocity (Unit: m/s)'
title: mean peak friction velocity
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: mean_peak_frict_vel
owner: WaterSample
domain_of:
- OtherUndescribedSample
- SedimentSample
- WaterSample
range: string
pattern: ^\d+(\.\d+)?\s*m/s$
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: WaterSample
domain_of:
- AerosolArmSample
- AerosolSample
- CommerciallyPurchasedSample
- CultureEnvironmentalSample
- FieldDeployedTerraformSample
- MixedCultureSample
- OtherUndescribedSample
- PlantSample
- PureCultureSample
- SedimentSample
- SoilSample
- TerraformSample
- WaterSample
range: string
misc_param:
name: misc_param
description: Any other measurement performed or parameter collected that is not
listed here
title: miscellaneous parameter
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: misc_param
owner: WaterSample
domain_of:
- AerosolArmSample
- AerosolSample
- FieldDeployedTerraformSample
- MonetSoilSample
- OtherUndescribedSample
- PlantSample
- SedimentSample
- SoilSample
- TerraformSample
- WaterSample
range: string
n_alkanes:
name: n_alkanes
description: 'Concentration of n-alkanes; can include multiple n-alkanes (Unit:
ug/mL)'
title: n-alkanes
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: n_alkanes
owner: WaterSample
domain_of:
- OtherUndescribedSample
- SedimentSample
- WaterSample
range: string
nitrate:
name: nitrate
description: 'Concentration of nitrate in the sample (Unit: umol/L or mg/L or
ppm)'
title: nitrate
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: nitrate
owner: WaterSample
domain_of:
- OtherUndescribedSample
- SedimentSample
- WaterSample
range: string
pattern: ^\d+(\.\d+)?\s*(umol/L|mg/L|ppm)$
nitrite:
name: nitrite
description: 'Concentration of nitrite in the sample (Unit: umol/L or mg/L or
ppm)'
title: nitrite
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: nitrite
owner: WaterSample
domain_of:
- OtherUndescribedSample
- SedimentSample
- WaterSample
range: string
pattern: ^\d+(\.\d+)?\s*(umol/L|mg/L|ppm)$
nitro:
name: nitro
description: 'Concentration of nitrogen (total) (Unit: umol/L)'
title: nitrogen
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: nitro
owner: WaterSample
domain_of:
- OtherUndescribedSample
- SedimentSample
- WaterSample
range: string
pattern: ^\d+(\.\d+)?\s*umol/L$
non_microb_biomass:
name: non_microb_biomass
description: 'Amount of non-microbial biomass measured. Include the name for the
part of biomass measured, e.g. insect, plant, total. Provide value and unit,
any unit is valid. (example: insect 5mg; plant 2ug/mL)'
title: non microbial biomass
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: non_microb_biomass
owner: WaterSample
domain_of:
- CultureEnvironmentalSample
- MixedCultureSample
- OtherUndescribedSample
- PlantSample
- PureCultureSample
- SedimentSample
- SoilSample
- WaterSample
range: string
pattern: ^(\S+\s+\d+\s*\S+)(;\s*\S+\s+\d+\s*\S+)*$
non_microb_biomass_method:
name: non_microb_biomass_method
description: Reference or method used in determining biomass
title: non microbial biomass method
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: non_microb_biomass_method
owner: WaterSample
domain_of:
- CultureEnvironmentalSample
- OtherUndescribedSample
- PlantSample
- PureCultureSample
- SedimentSample
- SoilSample
- WaterSample
range: string
org_carb:
name: org_carb
description: Concentration of organic carbon. Provide value and unit any unit
is valid
title: organic carbon
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: org_carb
owner: WaterSample
domain_of:
- OtherUndescribedSample
- SedimentSample
- WaterSample
range: string
pattern: ^\d+(\.\d+)?\s*[\w\s/]+$
org_matter:
name: org_matter
description: 'Concentration of organic matter (Unit: mg/L)'
title: organic matter
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: org_matter
owner: WaterSample
domain_of:
- OtherUndescribedSample
- SedimentSample
- WaterSample
range: string
pattern: ^\d+(\.\d+)?\s*mg/L$
org_nitro:
name: org_nitro
description: Concentration of organic nitrogen. Provide value and unit any unit
is valid
title: organic nitrogen
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: org_nitro
owner: WaterSample
domain_of:
- OtherUndescribedSample
- SedimentSample
- WaterSample
range: string
pattern: ^\d+(\.\d+)?\s*[\w\s/]+$
org_nitro_method:
name: org_nitro_method
description: Method used for obtaining organic nitrogen
title: organic nitrogen method
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: org_nitro_method
owner: WaterSample
domain_of:
- OtherUndescribedSample
- SedimentSample
- 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: WaterSample
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: WaterSample
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: WaterSample
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: WaterSample
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: WaterSample
domain_of:
- HasIncubationConditions
- CommerciallyPurchasedSample
- CultureEnvironmentalSample
- FieldDeployedTerraformSample
- MixedCultureSample
- OtherUndescribedSample
- PureCultureSample
- SedimentSample
- SoilSample
- SynthesizedMaterialSample
- TerraformSample
- WaterSample
range: OxygenStatusEnum
part_org_carb:
name: part_org_carb
description: Concentration of particulate organic carbon. Provide value and unit,
any unit is valid.
title: particulate organic carbon
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: part_org_carb
owner: WaterSample
domain_of:
- OtherUndescribedSample
- SedimentSample
- WaterSample
range: string
pattern: ^\d+(\.\d+)?\s*[\w\s/]+$
part_org_nitro:
name: part_org_nitro
description: 'Concentration of particulate organic nitrogen. (Unit: ug/L or umol/L)'
title: particulate organic nitrogen
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: part_org_nitro
owner: WaterSample
domain_of:
- OtherUndescribedSample
- WaterSample
range: string
pattern: ^\d+(\.\d+)?\s*(umol/L|ug/L)$
perturbation:
name: perturbation
description: Type of perturbation, e.g. chemical administration, physical disturbance,
etc.; coupled with perturbation regimen, including how many times the perturbation
was repeated, how long each perturbation lasted, and the start and end time
of the entire perturbation period; can include multiple perturbation types
title: perturbation
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: perturbation
owner: WaterSample
domain_of:
- OtherUndescribedSample
- SedimentSample
- SoilSample
- WaterSample
range: string
petroleum_hydrocarb:
name: petroleum_hydrocarb
description: 'Concentration of petroleum hydrocarbon (Unit: umol/L)'
title: petroleum hydrocarbon
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: petroleum_hydrocarb
owner: WaterSample
domain_of:
- OtherUndescribedSample
- SedimentSample
- WaterSample
range: string
pattern: ^\d+(\.\d+)?\s*umol/L$
ph:
name: ph
description: pH measurement of the sample or liquid portion of sample or aqueous
phase of the fluid
title: pH
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: ph
owner: WaterSample
domain_of:
- pHProduct
- OtherUndescribedSample
- SedimentSample
- SoilSample
- WaterSample
range: float
ph_meth:
name: ph_meth
description: Reference or method used in determining ph of the sample
title: pH method
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: ph_meth
owner: WaterSample
domain_of:
- OtherUndescribedSample
- SedimentSample
- SoilSample
- WaterSample
range: string
phaeopigments:
name: phaeopigments
description: 'Concentration of phaeopigments; can include multiple phaeopigments
separated by a `;` (Unit: mg/cm3)'
title: phaeopigments
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: phaeopigments
owner: WaterSample
domain_of:
- OtherUndescribedSample
- SedimentSample
- WaterSample
range: string
pattern: ^\d+(\.\d+)?\s*mg/cm3(;\s*\d+(\.\d+)?\s*mg/cm3)*$
phosphate:
name: phosphate
description: 'Concentration of phosphate (Unit: umol/L)'
title: phosphate
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: phosphate
owner: WaterSample
domain_of:
- OtherUndescribedSample
- SedimentSample
- WaterSample
range: string
pattern: ^\d+(\.\d+)?\s*umol/L$
phosplipid_fatt_acid:
name: phosplipid_fatt_acid
description: Concentration of phospholipid fatty acids; can include multiple values
separated by `;`. Provide the phospholipid fatty acids followed by the measurement
value ({phospholipid fatty acid name}{value} {unit})
title: phospholipid fatty acid
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: phosplipid_fatt_acid
owner: WaterSample
domain_of:
- OtherUndescribedSample
- SedimentSample
- WaterSample
range: string
photon_flux:
name: photon_flux
description: Measurement of photon flux. Provide value and unit, any unit is valid.
title: photon flux
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: photon_flux
owner: WaterSample
domain_of:
- OtherUndescribedSample
- WaterSample
range: string
pattern: ^\d+(\.\d+)?\s*[\w\s/]+$
potassium:
name: potassium
description: 'Concentration of potassium in the sample (Unit: mg/L)'
title: potassium
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: potassium
owner: WaterSample
domain_of:
- OtherUndescribedSample
- SedimentSample
- WaterSample
range: string
pattern: ^\d+(\.\d+)?\s*(mg/L|ppm)$
pressure:
name: pressure
description: 'Pressure to which the sample is subject, in atmospheres (Unit: atm)'
title: pressure
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: pressure
owner: WaterSample
domain_of:
- FieldDeployedTerraformSample
- OtherUndescribedSample
- SedimentSample
- TerraformSample
- WaterSample
- ConditioningValue
range: string
pattern: ^\d+(\.\d+)?\s*atm$
primary_prod:
name: primary_prod
description: Measurement of primary production generally measured as isotope uptake.
Provide value and unit, any unit is valid.
title: primary production
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: primary_prod
owner: WaterSample
domain_of:
- OtherUndescribedSample
- WaterSample
range: string
pattern: ^\d+(\.\d+)?\s*[\w\s/]+$
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: WaterSample
domain_of:
- DataProduct
- AerosolArmSample
- AerosolSample
- CommerciallyPurchasedSample
- CultureEnvironmentalSample
- FieldDeployedTerraformSample
- MixedCultureSample
- MonetSoilSample
- OtherUndescribedSample
- PlantSample
- PureCultureSample
- SedimentSample
- SoilSample
- SynthesizedMaterialSample
- TerraformSample
- WaterSample
- SamplingActivity
range: integer
redox_potential:
name: redox_potential
description: 'Redox potential measured relative to a hydrogen cell indicating
oxidation or reduction potential (Unit: mV)'
title: redox potential
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: redox_potential
owner: WaterSample
domain_of:
- FieldDeployedTerraformSample
- OtherUndescribedSample
- SedimentSample
- TerraformSample
- WaterSample
range: string
pattern: ^\d+(\.\d+)?\s*mV$
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: WaterSample
domain_of:
- AerosolArmSample
- AerosolSample
- CommerciallyPurchasedSample
- CultureEnvironmentalSample
- FieldDeployedTerraformSample
- MixedCultureSample
- OtherUndescribedSample
- PlantSample
- PureCultureSample
- SedimentSample
- SoilSample
- SynthesizedMaterialSample
- TerraformSample
- WaterSample
range: integer
salinity:
name: salinity
description: 'Salinity is the total concentration of all dissolved salts in a
sample. While salinity can be measured by a complete chemical analysis, this
method is difficult and time consuming. More often it is instead derived from
the conductivity measurement. This is known as practical salinity. These derivations
compare the specific conductance of the sample to a salinity standard such as
seawater (Unit: practical salinity unit or percent)'
title: salinity
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: salinity
owner: WaterSample
domain_of:
- OtherUndescribedSample
- PlantSample
- SedimentSample
- SoilSample
- WaterSample
range: string
pattern: ^\d+(\.\d+)?\s*(practical salinity unit|percent)$
salinity_method:
name: salinity_method
description: Method used to determine sample salinity
title: salinity method
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: salinity_method
owner: WaterSample
domain_of:
- OtherUndescribedSample
- PlantSample
- SedimentSample
- SoilSample
- WaterSample
range: string
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: WaterSample
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: WaterSample
domain_of:
- DataProduct
- AerosolArmSample
- AerosolSample
- CommerciallyPurchasedSample
- CultureEnvironmentalSample
- FieldDeployedTerraformSample
- MixedCultureSample
- MonetSoilSample
- OtherUndescribedSample
- PlantSample
- PureCultureSample
- SedimentSample
- SoilSample
- SynthesizedMaterialSample
- TerraformSample
- WaterSample
range: string
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: WaterSample
domain_of:
- AerosolArmSample
- AerosolSample
- CommerciallyPurchasedSample
- CultureEnvironmentalSample
- FieldDeployedTerraformSample
- MixedCultureSample
- MonetSoilSample
- OtherUndescribedSample
- PlantSample
- PureCultureSample
- SedimentSample
- SoilSample
- SynthesizedMaterialSample
- TerraformSample
- WaterSample
- ProcessedSample
range: SamplingActivity
silicate:
name: silicate
description: 'Concentration of silicate (Unit: umol/L)'
title: silicate
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: silicate
owner: WaterSample
domain_of:
- OtherUndescribedSample
- SedimentSample
- WaterSample
range: string
pattern: ^\d+(\.\d+)?\s*umol/L$
size_frac_low:
name: size_frac_low
description: 'Refers to the mesh/pore size used to retain the sample. Materials
smaller than the size threshold are excluded from the sample (Unit: um)'
title: size fraction lower threshold
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: size_frac_low
owner: WaterSample
domain_of:
- AerosolArmSample
- AerosolSample
- OtherUndescribedSample
- SoilSample
- WaterSample
range: string
required: true
pattern: ^\d+(\.\d+)?\s*um$
size_frac_up:
name: size_frac_up
description: 'Refers to the mesh/pore size used to pre-filter/pre-sort the sample.
Materials larger than the size threshold are excluded from the sample (Unit:
um)'
title: size fraction upper threshold
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: size_frac_up
owner: WaterSample
domain_of:
- AerosolArmSample
- AerosolSample
- OtherUndescribedSample
- SoilSample
- WaterSample
range: string
required: true
pattern: ^\d+(\.\d+)?\s*um$
sodium:
name: sodium
description: 'Sodium concentration in the sample (Unit: ug/mL)'
title: sodium
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: sodium
owner: WaterSample
domain_of:
- OtherUndescribedSample
- SedimentSample
- WaterSample
range: string
pattern: ^\d+(\.\d+)?\s*ug/mL$
soluble_react_phosp:
name: soluble_react_phosp
description: 'Concentration of soluble reactive phosphorus. (Unit: umol/L or mg/L
or ppm)'
title: soluble reactive phosphorus
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: soluble_react_phosp
owner: WaterSample
domain_of:
- OtherUndescribedSample
- WaterSample
range: string
pattern: ^\d+(\.\d+)?\s*(umol/L|mg/L|ppm)$
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: WaterSample
domain_of:
- AerosolArmSample
- AerosolSample
- CommerciallyPurchasedSample
- CultureEnvironmentalSample
- FieldDeployedTerraformSample
- MixedCultureSample
- OtherUndescribedSample
- PlantSample
- PureCultureSample
- SedimentSample
- SoilSample
- SynthesizedMaterialSample
- TerraformSample
- WaterSample
range: string
start_date_inc:
name: start_date_inc
description: 'Date the incubation was started. Only relevant for incubation samples.
Format: YYYY-MM-DD'
title: incubation start date
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: start_date_inc
owner: WaterSample
domain_of:
- AMP2UserSample
- CultureEnvironmentalSample
- FieldDeployedTerraformSample
- MixedCultureSample
- OtherUndescribedSample
- PlantSample
- PureCultureSample
- SedimentSample
- SoilSample
- WaterSample
range: string
pattern: ^[12]\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\d|3[01]))?)?$
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: WaterSample
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: WaterSample
domain_of:
- AerosolArmSample
- AerosolSample
- CommerciallyPurchasedSample
- CultureEnvironmentalSample
- FieldDeployedTerraformSample
- MixedCultureSample
- MonetSoilSample
- OtherUndescribedSample
- PlantSample
- PureCultureSample
- SedimentSample
- SoilSample
- SynthesizedMaterialSample
- TerraformSample
- WaterSample
range: string
sulfate:
name: sulfate
description: 'Concentration of sulfate in the sample. (Unit: umol/L or mg/L or
ppm)'
title: sulfate
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: sulfate
owner: WaterSample
domain_of:
- OtherUndescribedSample
- SedimentSample
- WaterSample
range: string
pattern: ^\d+(\.\d+)?\s*(umol/L|mg/L|ppm)$
sulfide:
name: sulfide
description: 'Concentration of sulfide in the sample. (Unit: umol/L or mg/L or
ppm)'
title: sulfide
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: sulfide
owner: WaterSample
domain_of:
- OtherUndescribedSample
- SedimentSample
- WaterSample
range: string
pattern: ^\d+(\.\d+)?\s*(umol/L|mg/L|ppm)$
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: WaterSample
domain_of:
- AerosolArmSample
- AerosolSample
- CommerciallyPurchasedSample
- CultureEnvironmentalSample
- FieldDeployedTerraformSample
- MixedCultureSample
- MonetSoilSample
- OtherUndescribedSample
- PlantSample
- PureCultureSample
- SedimentSample
- SoilSample
- SynthesizedMaterialSample
- TerraformSample
- WaterSample
range: SampleStoreTempEnum
suspend_part_matter:
name: suspend_part_matter
description: 'Concentration of suspended particulate matter. (Unit: mg/L)'
title: suspended particulate matter
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: suspend_part_matter
owner: WaterSample
domain_of:
- OtherUndescribedSample
- WaterSample
range: string
pattern: ^\d+(\.\d+)?\s*(mg/L)$
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: WaterSample
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: WaterSample
domain_of:
- CommerciallyPurchasedSample
- FieldDeployedTerraformSample
- MonetSoilSample
- OtherUndescribedSample
- PlantSample
- SedimentSample
- SoilSample
- SynthesizedMaterialSample
- TerraformSample
- WaterSample
range: string
pattern: ^-?\d+(\.\d+)?\s*C$
tidal_stage:
name: tidal_stage
description: Stage of tide
title: tidal stage
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: tidal_stage
owner: WaterSample
domain_of:
- OtherUndescribedSample
- SedimentSample
- WaterSample
range: TidalStageEnum
tot_depth_water_col:
name: tot_depth_water_col
description: 'Measurement of total depth of water column (Unit: m)'
title: total depth of water column
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: tot_depth_water_col
owner: WaterSample
domain_of:
- OtherUndescribedSample
- SedimentSample
- WaterSample
range: string
pattern: ^\d+(\.\d+)?\s*m$
tot_diss_nitro:
name: tot_diss_nitro
description: 'Total dissolved nitrogen concentration reported as nitrogen measured
by: total dissolved nitrogen = NH4 + NO3NO2 + dissolved organic nitrogen. (Unit:
ug/L)'
title: total dissolved nitrogen
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: tot_diss_nitro
owner: WaterSample
domain_of:
- OtherUndescribedSample
- WaterSample
range: string
pattern: ^\d+(\.\d+)?\s*(ug/L)$
tot_inorg_nitro:
name: tot_inorg_nitro
description: 'Total inorganic nitrogen content. (Unit: ug/L)'
title: total inorganic nitrogen
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: tot_inorg_nitro
owner: WaterSample
domain_of:
- OtherUndescribedSample
- WaterSample
range: string
pattern: ^\d+(\.\d+)?\s*(ug/L)$
tot_nitro:
name: tot_nitro
description: 'Total nitrogen concentration of water samples calculated by: total
nitrogen = total dissolved nitrogen + particulate nitrogen. Can also be measured
without filtering reported as nitrogen. (Unit: ug/L or umol/L or mg/L)'
title: total nitrogen
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: tot_nitro
owner: WaterSample
domain_of:
- OtherUndescribedSample
- WaterSample
range: string
pattern: ^\d+(\.\d+)?\s*(ug/L|umol/L|mg/L)$
tot_part_carb:
name: tot_part_carb
description: 'Total particulate carbon content. (Unit: ug/L or umol/L)'
title: total particulate carbon
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: tot_part_carb
owner: WaterSample
domain_of:
- OtherUndescribedSample
- WaterSample
range: string
pattern: ^\d+(\.\d+)?\s*(ug/L|umol/L)$
tot_phosp:
name: tot_phosp
description: 'Total phosphorus concentration in the sample calculated by: total
phosphorus = total dissolved phosphorus + particulate phosphorus. (Unit: ug/L
or umol/L)'
title: total phosphorus
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: tot_phosp
owner: WaterSample
domain_of:
- OtherUndescribedSample
- WaterSample
range: string
pattern: ^\d+(\.\d+)?\s*(ug/L|umol/L)$
turbidity:
name: turbidity
description: Measure of the amount of cloudiness or haziness in water caused by
individual particles. Provide value and unit any unit is valid.
title: turbidity
todos:
- decide how to represent in backend (normalized child table with FK to PlateSetupActivity,
array column, or other)
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: turbidity
owner: WaterSample
domain_of:
- OtherUndescribedSample
- SedimentSample
- WaterSample
range: string
pattern: ^\d+(\.\d+)?\s*[\w\s/]+$
water_current:
name: water_current
description: Measurement of magnitude and direction of flow within a fluid. Provide
value and unit, any unit is valid.
title: water current
from_schema: https://EMSL-Computing.github.io/BASALT-Schema
rank: 1000
alias: water_current
owner: WaterSample
domain_of:
- OtherUndescribedSample
- WaterSample
range: string
pattern: ^\d+(\.\d+)?\s*[\w\s/]+$
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: WaterSample
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: WaterSample
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: WaterSample
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: WaterSample
domain_of:
- ProcessedData
- Sample
range: string
required: false