nmdc_submission_schema_base.yaml

name: nmdc_submission_schema
description: Schema for creating Data Harmonizer interfaces for biosamples based on MIxS and other standards
id: https://example.com/nmdc_submission_schema
version: 0.0.0
prefixes:
  UO: http://purl.obolibrary.org/obo/UO_
  qud: http://example.org/qud/
  xsd: http://www.w3.org/2001/XMLSchema#
  nmdc_sub_schema: https://example.com/nmdc_sub_schema/
  linkml: https://w3id.org/linkml/
  shex: http://www.w3.org/ns/shex#
  schema: http://schema.org/
default_prefix: nmdc_sub_schema
default_range: string
imports:
  - linkml:types
types:
  unit:
    name: unit
    description: a string representation of a unit
    notes:
      - why isn't this picked up from the nmdc.yaml import?
    mappings:
      - qud:Unit
      - UO:0000000
    base: str
    uri: xsd:string
  decimal degree:
    name: decimal degree
    description: a float representation of a degree of rotation
    base: float
    uri: xsd:decimal
  language code:
    name: language code
    description: a string representation of a language
    base: str
    uri: xsd:language
enums:
  BioticRelationshipEnum:
    permissible_values:
      commensalism:
        annotations:
          sntc_name: samp_biotic_relationship
        notes:
          - 'biotic_relationship_enum: free living'
          - parasitism
          - commensalism
          - symbiotic
          - mutualism
        see_also:
          - https://genomicsstandardsconsortium.github.io/mixs/biotic_relationship_enum/
      free living:
      mutualism:
      parasitism:
      symbiotic:
  JgiContTypeEnum:
    permissible_values:
      plate:
      tube:
  DnaSampleFormatEnum:
    permissible_values:
      10 mM Tris-HCl:
      DNAStable:
      Ethanol:
      Low EDTA TE:
      MDA reaction buffer:
      PBS:
      Pellet:
      RNAStable:
      TE:
      Water:
  EnvPackageEnum:
    permissible_values:
      soil:
        notes:
          - I don't think this is a MIxS term anymore, so it make sense to define it here
  GrowthFacilEnum:
    permissible_values:
      experimental_garden:
        annotations:
          sntc_name: growth_facility
        notes:
          - string range according to MIxS
        see_also:
          - https://genomicsstandardsconsortium.github.io/mixs/growth_facil/
      field:
      field_incubation:
      glasshouse:
      greenhouse:
      growth_chamber:
      lab_incubation:
      open_top_chamber:
      other:
  RelToOxygenEnum:
    permissible_values:
      aerobe:
        annotations:
          sntc_name: oxygen_relationship
        see_also:
          - https://genomicsstandardsconsortium.github.io/mixs/rel_to_oxygen_enum/
      anaerobe:
      facultative:
      microaerophilic:
      microanaerobe:
      obligate aerobe:
      obligate anaerobe:
  RnaSampleFormatEnum:
    permissible_values:
      10 mM Tris-HCl:
      DNAStable:
      Ethanol:
      Low EDTA TE:
      MDA reaction buffer:
      PBS:
      Pellet:
      RNAStable:
      TE:
      Water:
  SampleTypeEnum:
    permissible_values:
      soil:
      water_extract_soil:
  StoreCondEnum:
    permissible_values:
      fresh:
        annotations:
          sntc_name: storage_condt
        notes:
          - see samp_store_dur, samp_store_loc, samp_store_temp and store_cond (which takes a string range according to mixs-source).
      frozen:
      lyophilized:
      other:
  YesNoEnum:
    description: replaces DnaDnaseEnum and DnaseRnaEnum
    permissible_values:
      'no': { }
      'yes': { }
  EnvBroadScaleSoilEnum:
    permissible_values:
      arid biome [ENVO:01001838]:
      subalpine biome [ENVO:01001837]:
      montane biome [ENVO:01001836]:
      __montane savanna biome [ENVO:01000223]:
      __montane shrubland biome [ENVO:01000216]:
      alpine biome [ENVO:01001835]:
      __alpine tundra biome [ENVO:01001505]:
      subpolar biome [ENVO:01001834]:
      subtropical biome [ENVO:01001832]:
      __mediterranean biome [ENVO:01001833]:
      ____mediterranean savanna biome [ENVO:01000229]:
      ____mediterranean shrubland biome [ENVO:01000217]:
      ____mediterranean woodland biome [ENVO:01000208]:
      __subtropical woodland biome [ENVO:01000222]:
      __subtropical shrubland biome [ENVO:01000213]:
      __subtropical savanna biome [ENVO:01000187]:
      temperate biome [ENVO:01001831]:
      __temperate woodland biome [ENVO:01000221]:
      __temperate shrubland biome [ENVO:01000215]:
      __temperate savanna biome [ENVO:01000189]:
      tropical biome [ENVO:01001830]:
      __tropical woodland biome [ENVO:01000220]:
      __tropical shrubland biome [ENVO:01000214]:
      __tropical savanna biome [ENVO:01000188]:
      polar biome [ENVO:01000339]:
      terrestrial biome [ENVO:00000446]:
      __anthropogenic terrestrial biome [ENVO:01000219]:
      ____dense settlement biome [ENVO:01000248]:
      ______urban biome [ENVO:01000249]:
      ____rangeland biome [ENVO:01000247]:
      ____village biome [ENVO:01000246]:
      __mangrove biome [ENVO:01000181]:
      __tundra biome [ENVO:01000180]:
      ____alpine tundra biome [ENVO:01001505]:
      __shrubland biome [ENVO:01000176]:
      ____tidal mangrove shrubland [ENVO:01001369]:
      ____xeric shrubland biome [ENVO:01000218]:
      ____montane shrubland biome [ENVO:01000216]:
      ____temperate shrubland biome [ENVO:01000215]:
      ____tropical shrubland biome [ENVO:01000214]:
      ____subtropical shrubland biome [ENVO:01000213]:
      ______mediterranean shrubland biome [ENVO:01000217]:
      __woodland biome [ENVO:01000175]:
      ____subtropical woodland biome [ENVO:01000222]:
      ______mediterranean woodland biome [ENVO:01000208]:
      ____temperate woodland biome [ENVO:01000221]:
      ____tropical woodland biome [ENVO:01000220]:
      ____savanna biome [ENVO:01000178]:
      ______montane savanna biome [ENVO:01000223]:
      ______flooded savanna biome [ENVO:01000190]:
      ______temperate savanna biome [ENVO:01000189]:
      ______tropical savanna biome [ENVO:01000188]:
      ______subtropical savanna biome [ENVO:01000187]:
      ________mediterranean savanna biome [ENVO:01000229]:
  EnvMediumSoilEnum:
    permissible_values:
      pathogen-suppressive soil [ENVO:03600036]:
      mangrove biome soil [ENVO:02000138]:
      surface soil [ENVO:02000059]:
      frost-susceptible soil [ENVO:01001638]:
      bare soil [ENVO:01001616]:
      frozen soil [ENVO:01001526]:
      __friable-frozen soil [ENVO:01001528]:
      __plastic-frozen soil [ENVO:01001527]:
      __hard-frozen soil [ENVO:01001525]:
      __frozen compost soil [ENVO:00005765]:
      __cryosol [ENVO:00002236]:
      ultisol [ENVO:01001397]:
      __acrisol [ENVO:00002234]:
      acidic soil [ENVO:01001185]:
      bulk soil [ENVO:00005802]:
      red soil [ENVO:00005790]:
      upland soil [ENVO:00005786]:
      __mountain forest soil [ENVO:00005769]:
      __dune soil [ENVO:00002260]:
      ornithogenic soil [ENVO:00005782]:
      heat stressed soil [ENVO:00005781]:
      greenhouse soil [ENVO:00005780]:
      tropical soil [ENVO:00005778]:
      pasture soil [ENVO:00005773]:
      muddy soil [ENVO:00005771]:
      orchid soil [ENVO:00005768]:
      manured soil [ENVO:00005767]:
      limed soil [ENVO:00005766]:
      pond soil [ENVO:00005764]:
      meadow soil [ENVO:00005761]:
      burned soil [ENVO:00005760]:
      lawn soil [ENVO:00005756]:
      field soil [ENVO:00005755]:
      __paddy field soil [ENVO:00005740]:
      ____peaty paddy field soil [ENVO:00005776]:
      ____alluvial paddy field soil [ENVO:00005759]:
      fertilized soil [ENVO:00005754]:
      sawah soil [ENVO:00005752]:
      jungle soil [ENVO:00005751]:
      grassland soil [ENVO:00005750]:
      __steppe soil [ENVO:00005777]:
      __savanna soil [ENVO:00005746]:
      farm soil [ENVO:00005749]:
      __rubber plantation soil [ENVO:00005788]:
      __orchard soil [ENVO:00005772]:
      dry soil [ENVO:00005748]:
      compost soil [ENVO:00005747]:
      roadside soil [ENVO:00005743]:
      arable soil [ENVO:00005742]:
      alpine soil [ENVO:00005741]:
      alluvial soil [ENVO:00002871]:
      __alluvial paddy field soil [ENVO:00005759]:
      __alluvial swamp soil [ENVO:00005758]:
      technosol [ENVO:00002275]:
      stagnosol [ENVO:00002274]:
      fluvisol [ENVO:00002273]:
      garden soil [ENVO:00002263]:
      __vegetable garden soil [ENVO:00005779]:
      __allotment garden soil [ENVO:00005744]:
      clay soil [ENVO:00002262]:
      forest soil [ENVO:00002261]:
      __eucalyptus forest soil [ENVO:00005787]:
      __spruce forest soil [ENVO:00005784]:
      __leafy wood soil [ENVO:00005783]:
      __beech forest soil [ENVO:00005770]:
      agricultural soil [ENVO:00002259]:
      __bluegrass field soil [ENVO:00005789]:
      loam [ENVO:00002258]:
      __clay loam [ENVO:06105277]:
      ____silty clay loam [ENVO:06105278]:
      ____sandy clay loam [ENVO:06105276]:
      __silty loam [ENVO:06105275]:
      __sandy loam [ENVO:06105274]:
      podzol [ENVO:00002257]:
      regosol [ENVO:00002256]:
      solonetz [ENVO:00002255]:
      vertisol [ENVO:00002254]:
      umbrisol [ENVO:00002253]:
      solonchak [ENVO:00002252]:
      planosol [ENVO:00002251]:
      plinthosol [ENVO:00002250]:
      phaeozem [ENVO:00002249]:
      luvisol [ENVO:00002248]:
      nitisol [ENVO:00002247]:
      ferralsol [ENVO:00002246]:
      gypsisol [ENVO:00002245]:
      gleysol [ENVO:00002244]:
      histosol [ENVO:00002243]:
      __peat soil [ENVO:00005774]:
      lixisol [ENVO:00002242]:
      leptosol [ENVO:00002241]:
      kastanozem [ENVO:00002240]:
      calcisol [ENVO:00002239]:
      durisol [ENVO:00002238]:
      chernozem [ENVO:00002237]:
      cambisol [ENVO:00002235]:
      albeluvisol [ENVO:00002233]:
      andosol [ENVO:00002232]:
      __volcanic soil [ENVO:01001841]:
      alisol [ENVO:00002231]:
      anthrosol [ENVO:00002230]:
      arenosol [ENVO:00002229]:
  EnvLocalScaleSoilEnum:
    permissible_values:
      astronomical body part [ENVO:01000813]:
      __coast [ENVO:01000687]:
      __solid astronomical body part [ENVO:00000191]:
      ______landform [ENVO:01001886]:
      ______channel [ENVO:03000117]:
      ________tunnel [ENVO:00000068]:
      ______surface landform [ENVO:01001884]:
      ________desert [ENVO:01001357]:
      ________outcrop [ENVO:01000302]:
      ________boulder field [ENVO:00000537]:
      ________landfill [ENVO:00000533]:
      ________hummock [ENVO:00000516]:
      ________terrace [ENVO:00000508]:
      ________peninsula [ENVO:00000305]:
      ________shore [ENVO:00000304]:
      __________lake shore [ENVO:00000382]:
      ________dry lake [ENVO:00000277]:
      ________karst [ENVO:00000175]:
      ________isthmus [ENVO:00000174]:
      ________badland [ENVO:00000127]:
      ________volcanic feature [ENVO:00000094]:
      __________volcanic cone [ENVO:00000398]:
      ____________tuff cone [ENVO:01000664]:
      ________beach [ENVO:00000091]:
      ________plain [ENVO:00000086]:
      ________cave [ENVO:00000067]:
      ________spring [ENVO:00000027]:
      ______slope [ENVO:00002000]:
      ________talus slope [ENVO:01000334]:
      ________hillside [ENVO:01000333]:
      ________levee [ENVO:00000178]:
      ________bank [ENVO:00000141]:
      ________cliff [ENVO:00000087]:
      ______peak [ENVO:00000480]:
      ______depressed landform [ENVO:00000309]:
      ________geographic basin [ENVO:03000015]:
      __________valley [ENVO:00000100]:
      ____________canyon [ENVO:00000169]:
      ____________dry valley [ENVO:00000128]:
      ____________glacial valley [ENVO:00000248]:
      ________pit [ENVO:01001871]:
      ________trench [ENVO:01000649]:
      ________swale [ENVO:00000543]:
      ________crater [ENVO:00000514]:
      __________impact crater [ENVO:01001071]:
      __________volcanic crater [ENVO:00000246]:
      __________caldera [ENVO:00000096]:
      ________channel of a watercourse [ENVO:00000395]:
      __________strait [ENVO:00000394]:
      __________dry stream [ENVO:00000278]:
      ____________dry river [ENVO:01000995]:
      __________artificial channel [ENVO:00000121]:
      ____________plumbing drain [ENVO:01000924]:
      ____________ditch [ENVO:00000037]:
      ________sinkhole [ENVO:00000195]:
      ______elevated landform [ENVO:00000176]:
      ________flattened elevation [ENVO:01001491]:
      __________butte [ENVO:00000287]:
      __________plateau [ENVO:00000182]:
      __________mesa [ENVO:00000179]:
      ________pinnacle [ENVO:00000481]:
      ________mount [ENVO:00000477]:
      __________hill [ENVO:00000083]:
      ____________dune [ENVO:00000170]:
      __________mountain [ENVO:00000081]:
      ________ridge [ENVO:00000283]:
      ____part of a landmass [ENVO:01001781]:
      ______peninsula [ENVO:00000305]:
      ____geological fracture [ENVO:01000667]:
      ______vein [ENVO:01000670]:
      ______geological fault [ENVO:01000668]:
      ________active geological fault [ENVO:01000669]:
      ______volcano [ENVO:00000247]:
      __field [ENVO:01000352]:
      ____lava field [ENVO:01000437]:
      ____gravel field [ENVO:00000548]:
      ____woodland clearing [ENVO:00000444]:
      ____agricultural field [ENVO:00000114]:
      ____snow field [ENVO:00000146]:
      __geographic feature [ENVO:00000000]:
      ____hydrographic feature [ENVO:00000012]:
      ______reef [ENVO:01001899]:
      ______inlet [ENVO:00000475]:
      ______bar [ENVO:00000167]:
      ________tombolo [ENVO:00000420]:
      ____anthropogenic geographic feature [ENVO:00000002]:
      ______yard [ENVO:03600053]:
      ________residential backyard [ENVO:03600033]:
      ______market [ENVO:01000987]:
      ______park [ENVO:00000562]:
      ______well [ENVO:00000026]:
      ______garden [ENVO:00000011]:
  OxyStatSampEnum:
    permissible_values:
      aerobic:
      anaerobic:
      other:
slots:
  air_data:
    description: aggregation slot relating air data collections to a SampleData container
    multivalued: true
    range: AirInterface
    inlined: true
    inlined_as_list: true
  biofilm_data:
    description: aggregation slot relating biofilm data collections to a SampleData container
    multivalued: true
    range: BiofilmInterface
    inlined: true
    inlined_as_list: true
  built_env_data:
    description: aggregation slot relating built_env data collections to a SampleData container
    multivalued: true
    range: BuiltEnvInterface
    inlined: true
    inlined_as_list: true
  emsl_data:
    description: aggregation slot relating emsl data collections to a SampleData container
    multivalued: true
    range: EmslInterface
    inlined: true
    inlined_as_list: true
  hcr_cores_data:
    description: aggregation slot relating hcr_cores data collections to a SampleData container
    multivalued: true
    range: HcrCoresInterface
    inlined: true
    inlined_as_list: true
  hcr_fluids_swabs_data:
    description: aggregation slot relating hcr_fluids_swabs data collections to a SampleData container
    multivalued: true
    range: HcrFluidsSwabsInterface
    inlined: true
    inlined_as_list: true
  host_associated_data:
    description: aggregation slot relating host_associated data collections to a SampleData container
    multivalued: true
    range: HostAssociatedInterface
    inlined: true
    inlined_as_list: true
  jgi_mg_data:
    description: aggregation slot relating jgi_mg data collections to a SampleData container
    multivalued: true
    range: JgiMgInterface
    inlined: true
    inlined_as_list: true
  jgi_mg_lr_data:
    description: aggregation slot relating jgi_mg_lr data collections to a SampleData container
    multivalued: true
    range: JgiMgLrInterface
    inlined: true
    inlined_as_list: true
  jgi_mt_data:
    description: aggregation slot relating jgi_mt data collections to a SampleData container
    multivalued: true
    range: JgiMtInterface
    inlined: true
    inlined_as_list: true
  misc_envs_data:
    description: aggregation slot relating misc_envs data collections to a SampleData container
    multivalued: true
    range: MiscEnvsInterface
    inlined: true
    inlined_as_list: true
  plant_associated_data:
    description: aggregation slot relating plant_associated data collections to a SampleData container
    multivalued: true
    range: PlantAssociatedInterface
    inlined: true
    inlined_as_list: true
  sediment_data:
    description: aggregation slot relating sediment data collections to a SampleData container
    multivalued: true
    range: SedimentInterface
    inlined: true
    inlined_as_list: true
  soil_data:
    description: aggregation slot relating soil data collections to a SampleData container
    multivalued: true
    range: SoilInterface
    inlined: true
    inlined_as_list: true
  wastewater_sludge_data:
    description: aggregation slot relating wastewater_sludge data collections to a SampleData container
    multivalued: true
    range: WastewaterSludgeInterface
    inlined: true
    inlined_as_list: true
  water_data:
    description: aggregation slot relating water data collections to a SampleData container
    multivalued: true
    range: WaterInterface
    inlined: true
    inlined_as_list: true
  dh_section:
    description: dh_section grouping slot
  emsl_section:
    title: EMSL
    rank: 2
    is_a: dh_section
  jgi_metagenomics_section:
    title: JGI-Metagenomics
    rank: 3
    is_a: dh_section
  jgi_metatranscriptomics_section:
    title: JGI-Metatranscriptomics
    rank: 4
    is_a: dh_section
  mixs_core_section:
    title: MIxS Core
    rank: 10
    is_a: dh_section
  mixs_inspired_section:
    title: MIxS Inspired
    rank: 7
    is_a: dh_section
  mixs_investigation_section:
    rank: 8
    is_a: dh_section
  mixs_modified_section:
    title: MIxS (modified)
    rank: 6
    is_a: dh_section
  mixs_nassf_section:
    rank: 9
    is_a: dh_section
  mixs_section:
    title: MIxS
    rank: 5
    is_a: dh_section
  sample_id_section:
    title: Sample ID
    rank: 1
    is_a: dh_section
classes:
  AirInterface:
    annotations:
      excel_worksheet_name: air
    description: air dh_interface
    title: Air
    is_a: DhInterface
    mixins:
      - DhMultiviewCommonColumnsMixin
      - SampIdNewTermsMixin
  BiofilmInterface:
    annotations:
      excel_worksheet_name: microbial mat_biofilm
    description: biofilm dh_interface
    title: Biofilm
    is_a: DhInterface
    mixins:
      - DhMultiviewCommonColumnsMixin
      - SampIdNewTermsMixin
  BuiltEnvInterface:
    annotations:
      excel_worksheet_name: built environment
    description: built_env dh_interface
    title: Built Env
    is_a: DhInterface
    mixins:
      - DhMultiviewCommonColumnsMixin
      - SampIdNewTermsMixin
  EmslInterface:
    annotations:
      excel_worksheet_name: EMSL
    description: emsl dh_interface
    title: Emsl
    is_a: DhInterface
    mixins:
      - DhMultiviewCommonColumnsMixin
    slots:
      - emsl_store_temp
      - project_id
      - replicate_number
      - sample_shipped
      - sample_type
      - technical_reps
  HcrCoresInterface:
    annotations:
      excel_worksheet_name: hcr core
    description: hcr_cores dh_interface
    title: Hcr Cores
    is_a: DhInterface
    mixins:
      - DhMultiviewCommonColumnsMixin
  HcrFluidsSwabsInterface:
    annotations:
      excel_worksheet_name: hcr fluids swab
    description: hcr_fluids_swabs dh_interface
    title: Hcr Fluids Swabs
    is_a: DhInterface
    mixins:
      - DhMultiviewCommonColumnsMixin
  HostAssociatedInterface:
    annotations:
      excel_worksheet_name: host-associated
    description: host_associated dh_interface
    title: Host Associated
    is_a: DhInterface
    mixins:
      - DhMultiviewCommonColumnsMixin
      - SampIdNewTermsMixin
  JgiMgInterface:
    annotations:
      excel_worksheet_name: JGI MG
    description: Metadata for samples sent to JGI for standard metagenome sequencing
    title: JGI MG
    is_a: DhInterface
    mixins:
      - DhMultiviewCommonColumnsMixin
    slots:
      - dna_absorb1
      - dna_absorb2
      - dna_concentration
      - dna_cont_type
      - dna_cont_well
      - dna_container_id
      - dna_dnase
      - dna_isolate_meth
      - dna_project_contact
      - dna_samp_id
      - dna_sample_format
      - dna_sample_name
      - dna_seq_project
      - dna_seq_project_name
      - dna_seq_project_pi
      - dna_volume
      - proposal_dna
  JgiMgLrInterface:
    annotations:
      excel_worksheet_name: JGI MG (Long Read)
    description: Metadata for samples sent to JGI for long read metagenome sequecning
    title: JGI MG (Long Read)
    is_a: DhInterface
    mixins:
      - DhMultiviewCommonColumnsMixin
    slots:
      - dna_absorb1
      - dna_absorb2
      - dna_concentration
      - dna_cont_type
      - dna_cont_well
      - dna_container_id
      - dna_dnase
      - dna_isolate_meth
      - dna_project_contact
      - dna_samp_id
      - dna_sample_format
      - dna_sample_name
      - dna_seq_project
      - dna_seq_project_name
      - dna_seq_project_pi
      - dna_volume
      - proposal_dna
  JgiMtInterface:
    annotations:
      excel_worksheet_name: JGI MT
    description: jgi_mt dh_interface
    title: JGI MT
    is_a: DhInterface
    mixins:
      - DhMultiviewCommonColumnsMixin
    slots:
      - dnase_rna
      - proposal_rna
      - rna_absorb1
      - rna_absorb2
      - rna_concentration
      - rna_cont_type
      - rna_cont_well
      - rna_container_id
      - rna_isolate_meth
      - rna_project_contact
      - rna_samp_id
      - rna_sample_format
      - rna_sample_name
      - rna_seq_project
      - rna_seq_project_name
      - rna_seq_project_pi
      - rna_volume
  MiscEnvsInterface:
    annotations:
      excel_worksheet_name: misc natural or artificial
    description: misc_envs dh_interface
    title: Misc Envs
    is_a: DhInterface
    mixins:
      - DhMultiviewCommonColumnsMixin
  PlantAssociatedInterface:
    annotations:
      excel_worksheet_name: plant-associated
    description: plant_associated dh_interface
    title: Plant Associated
    is_a: DhInterface
    mixins:
      - DhMultiviewCommonColumnsMixin
      - SampIdNewTermsMixin
  SedimentInterface:
    annotations:
      excel_worksheet_name: sediment
    description: sediment dh_interface
    title: Sediment
    is_a: DhInterface
    mixins:
      - DhMultiviewCommonColumnsMixin
      - SampIdNewTermsMixin
  SoilInterface:
    annotations:
      excel_worksheet_name: soil
    description: soil dh_interface
    title: Soil
    is_a: DhInterface
    mixins:
      - DhMultiviewCommonColumnsMixin
      - SampIdNewTermsMixin
      - SoilMixsInspiredMixin
  WastewaterSludgeInterface:
    annotations:
      excel_worksheet_name: wastewater sludge
    description: wastewater_sludge dh_interface
    title: Wastewater Sludge
    is_a: DhInterface
    mixins:
      - DhMultiviewCommonColumnsMixin
      - SampIdNewTermsMixin
  WaterInterface:
    annotations:
      excel_worksheet_name: water
    description: water dh_interface
    title: Water
    is_a: DhInterface
    mixins:
      - DhMultiviewCommonColumnsMixin
      - SampIdNewTermsMixin
  DhMultiviewCommonColumnsMixin:
    description: Mixin with DhMutliviewCommon Columns
    title: Dh Mutliview Common Columns
    mixin: true
  SampIdNewTermsMixin:
    description: Mixin with SampIdNew Terms
    title: SampId New Terms
    mixin: true
    slots:
      - sample_link
  SoilMixsInspiredMixin:
    description: Mixin with SoilMixsInspired Terms
    title: Soil MIxS Inspired Mixin
    mixin: true
    slots:
      - collection_date_inc
      - collection_time
      - collection_time_inc
      - experimental_factor_other
      - filter_method
      - isotope_exposure
      - micro_biomass_c_meth
      - micro_biomass_n_meth
      - microbial_biomass_c
      - microbial_biomass_n
      - non_microb_biomass
      - non_microb_biomass_method
      - org_nitro_method
      - other_treatment
      - start_date_inc
      - start_time_inc
  DhInterface:
    description: One DataHarmonizer interface, for the specified combination of a checklist, enviornmental_package, and various standards, user facilities or analysis types
    title: Dh Root Interface
  SampleData:
    description: represents data produced by the DataHarmonizer tabs of the submission portal
    title: SampleData
    slots:
      - air_data
      - biofilm_data
      - built_env_data
      - host_associated_data
      - plant_associated_data
      - sediment_data
      - soil_data
      - wastewater_sludge_data
      - water_data
      - emsl_data
      - jgi_mg_lr_data
      - jgi_mg_data
      - jgi_mt_data
    tree_root: true
settings: [ ]