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Merge pull request #94 from microbiomedata/shorten_pv_underscores
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Shorten underscores in envo enum PVs
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pkalita-lbl authored Apr 7, 2023
2 parents d8eb0c4 + 91ff544 commit 7ddb63b
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Showing 19 changed files with 7,431 additions and 7,431 deletions.
52 changes: 26 additions & 26 deletions examples/output/README.md
Original file line number Diff line number Diff line change
Expand Up @@ -8,8 +8,8 @@ soil_data:
collection_date: '2022-01-15'
depth: 0 - 1
elev: 123
env_broad_scale: ____________urban biome [ENVO:01000249]
env_local_scale: ___________________tunnel [ENVO:00000068]
env_broad_scale: ______urban biome [ENVO:01000249]
env_local_scale: ________tunnel [ENVO:00000068]
env_medium: bare soil [ENVO:01001616]
env_package: soil
geo_loc_name: 'USA: Nowhere, Oklahoma'
Expand Down Expand Up @@ -328,8 +328,8 @@ soil_data:
ecosystem_subtype: Unclassified
ecosystem_type: Soil
elev: 123
env_broad_scale: ____________urban biome [ENVO:01000249]
env_local_scale: ___________________tunnel [ENVO:00000068]
env_broad_scale: ______urban biome [ENVO:01000249]
env_local_scale: ________tunnel [ENVO:00000068]
env_medium: bare soil [ENVO:01001616]
env_package: soil
experimental_factor: xxx [ENVO:00000000]
Expand Down Expand Up @@ -421,8 +421,8 @@ soil_data:
ecosystem_subtype: Unclassified
ecosystem_type: Soil
elev: 123
env_broad_scale: ____________urban biome [ENVO:01000249]
env_local_scale: ___________________tunnel [ENVO:00000068]
env_broad_scale: ______urban biome [ENVO:01000249]
env_local_scale: ________tunnel [ENVO:00000068]
env_medium: bare soil [ENVO:01001616]
env_package: soil
geo_loc_name: 'USA: Maryland, Bethesda'
Expand All @@ -447,8 +447,8 @@ soil_data:
collection_date: '2022-01-15'
depth: '0'
elev: 123
env_broad_scale: ____________urban biome [ENVO:01000249]
env_local_scale: ___________________tunnel [ENVO:00000068]
env_broad_scale: ______urban biome [ENVO:01000249]
env_local_scale: ________tunnel [ENVO:00000068]
env_medium: bare soil [ENVO:01001616]
env_package: soil
geo_loc_name: 'USA: Nowhere, Oklahoma'
Expand All @@ -464,8 +464,8 @@ soil_data:
collection_date: '2022-01-15'
depth: '10'
elev: 123
env_broad_scale: ____________urban biome [ENVO:01000249]
env_local_scale: ___________________tunnel [ENVO:00000068]
env_broad_scale: ______urban biome [ENVO:01000249]
env_local_scale: ________tunnel [ENVO:00000068]
env_medium: bare soil [ENVO:01001616]
env_package: soil
geo_loc_name: 'USA: Nowhere, Oklahoma'
Expand All @@ -481,8 +481,8 @@ soil_data:
collection_date: '2022-01-15'
depth: '10.5'
elev: 123
env_broad_scale: ____________urban biome [ENVO:01000249]
env_local_scale: ___________________tunnel [ENVO:00000068]
env_broad_scale: ______urban biome [ENVO:01000249]
env_local_scale: ________tunnel [ENVO:00000068]
env_medium: bare soil [ENVO:01001616]
env_package: soil
geo_loc_name: 'USA: Nowhere, Oklahoma'
Expand All @@ -498,8 +498,8 @@ soil_data:
collection_date: '2022-01-15'
depth: '-30.5'
elev: 123
env_broad_scale: ____________urban biome [ENVO:01000249]
env_local_scale: ___________________tunnel [ENVO:00000068]
env_broad_scale: ______urban biome [ENVO:01000249]
env_local_scale: ________tunnel [ENVO:00000068]
env_medium: bare soil [ENVO:01001616]
env_package: soil
geo_loc_name: 'USA: Nowhere, Oklahoma'
Expand All @@ -515,8 +515,8 @@ soil_data:
collection_date: '2022-01-15'
depth: 10.4-45.9999
elev: 123
env_broad_scale: ____________urban biome [ENVO:01000249]
env_local_scale: ___________________tunnel [ENVO:00000068]
env_broad_scale: ______urban biome [ENVO:01000249]
env_local_scale: ________tunnel [ENVO:00000068]
env_medium: bare soil [ENVO:01001616]
env_package: soil
geo_loc_name: 'USA: Nowhere, Oklahoma'
Expand All @@ -532,8 +532,8 @@ soil_data:
collection_date: '2022-01-15'
depth: 10.4 - 45.9999
elev: 123
env_broad_scale: ____________urban biome [ENVO:01000249]
env_local_scale: ___________________tunnel [ENVO:00000068]
env_broad_scale: ______urban biome [ENVO:01000249]
env_local_scale: ________tunnel [ENVO:00000068]
env_medium: bare soil [ENVO:01001616]
env_package: soil
geo_loc_name: 'USA: Nowhere, Oklahoma'
Expand All @@ -549,8 +549,8 @@ soil_data:
collection_date: '2022-01-15'
depth: -10.4 - 45.9999
elev: 123
env_broad_scale: ____________urban biome [ENVO:01000249]
env_local_scale: ___________________tunnel [ENVO:00000068]
env_broad_scale: ______urban biome [ENVO:01000249]
env_local_scale: ________tunnel [ENVO:00000068]
env_medium: bare soil [ENVO:01001616]
env_package: soil
geo_loc_name: 'USA: Nowhere, Oklahoma'
Expand All @@ -566,8 +566,8 @@ soil_data:
collection_date: '2022-01-15'
depth: -5--6
elev: 123
env_broad_scale: ____________urban biome [ENVO:01000249]
env_local_scale: ___________________tunnel [ENVO:00000068]
env_broad_scale: ______urban biome [ENVO:01000249]
env_local_scale: ________tunnel [ENVO:00000068]
env_medium: bare soil [ENVO:01001616]
env_package: soil
geo_loc_name: 'USA: Nowhere, Oklahoma'
Expand Down Expand Up @@ -1036,8 +1036,8 @@ soil_data:
collection_date: '2022-01-15'
depth: 0 to 1
elev: 123
env_broad_scale: ____________urban biome [ENVO:01000249]
env_local_scale: ___________________tunnel [ENVO:00000068]
env_broad_scale: ______urban biome [ENVO:01000249]
env_local_scale: ________tunnel [ENVO:00000068]
env_medium: bare soil [ENVO:01001616]
env_package: soil
geo_loc_name: 'USA: Nowhere, Oklahoma'
Expand Down Expand Up @@ -1182,8 +1182,8 @@ soil_data:
ecosystem_category: Terrestrial
ecosystem_subtype: Unclassified
ecosystem_type: Soil
env_broad_scale: ____________urban biome [ENVO:01000249]
env_local_scale: ___________________tunnel [ENVO:00000068]
env_broad_scale: ______urban biome [ENVO:01000249]
env_local_scale: ________tunnel [ENVO:00000068]
env_medium: bare soil [ENVO:01001616]
env_package: soil
geo_loc_name: 'USA: Nowhere, Oklahoma'
Expand Down
32 changes: 16 additions & 16 deletions examples/output/SampleData-soil-data-depth-formats.json
Original file line number Diff line number Diff line change
Expand Up @@ -8,8 +8,8 @@
"collection_date": "2022-01-15",
"depth": "0",
"elev": "123.0",
"env_broad_scale": "____________urban biome [ENVO:01000249]",
"env_local_scale": "___________________tunnel [ENVO:00000068]",
"env_broad_scale": "______urban biome [ENVO:01000249]",
"env_local_scale": "________tunnel [ENVO:00000068]",
"env_medium": "bare soil [ENVO:01001616]",
"env_package": "soil",
"geo_loc_name": "USA: Nowhere, Oklahoma",
Expand All @@ -28,8 +28,8 @@
"collection_date": "2022-01-15",
"depth": "10",
"elev": "123.0",
"env_broad_scale": "____________urban biome [ENVO:01000249]",
"env_local_scale": "___________________tunnel [ENVO:00000068]",
"env_broad_scale": "______urban biome [ENVO:01000249]",
"env_local_scale": "________tunnel [ENVO:00000068]",
"env_medium": "bare soil [ENVO:01001616]",
"env_package": "soil",
"geo_loc_name": "USA: Nowhere, Oklahoma",
Expand All @@ -48,8 +48,8 @@
"collection_date": "2022-01-15",
"depth": "10.5",
"elev": "123.0",
"env_broad_scale": "____________urban biome [ENVO:01000249]",
"env_local_scale": "___________________tunnel [ENVO:00000068]",
"env_broad_scale": "______urban biome [ENVO:01000249]",
"env_local_scale": "________tunnel [ENVO:00000068]",
"env_medium": "bare soil [ENVO:01001616]",
"env_package": "soil",
"geo_loc_name": "USA: Nowhere, Oklahoma",
Expand All @@ -68,8 +68,8 @@
"collection_date": "2022-01-15",
"depth": "-30.5",
"elev": "123.0",
"env_broad_scale": "____________urban biome [ENVO:01000249]",
"env_local_scale": "___________________tunnel [ENVO:00000068]",
"env_broad_scale": "______urban biome [ENVO:01000249]",
"env_local_scale": "________tunnel [ENVO:00000068]",
"env_medium": "bare soil [ENVO:01001616]",
"env_package": "soil",
"geo_loc_name": "USA: Nowhere, Oklahoma",
Expand All @@ -88,8 +88,8 @@
"collection_date": "2022-01-15",
"depth": "10.4-45.9999",
"elev": "123.0",
"env_broad_scale": "____________urban biome [ENVO:01000249]",
"env_local_scale": "___________________tunnel [ENVO:00000068]",
"env_broad_scale": "______urban biome [ENVO:01000249]",
"env_local_scale": "________tunnel [ENVO:00000068]",
"env_medium": "bare soil [ENVO:01001616]",
"env_package": "soil",
"geo_loc_name": "USA: Nowhere, Oklahoma",
Expand All @@ -108,8 +108,8 @@
"collection_date": "2022-01-15",
"depth": "10.4 - 45.9999",
"elev": "123.0",
"env_broad_scale": "____________urban biome [ENVO:01000249]",
"env_local_scale": "___________________tunnel [ENVO:00000068]",
"env_broad_scale": "______urban biome [ENVO:01000249]",
"env_local_scale": "________tunnel [ENVO:00000068]",
"env_medium": "bare soil [ENVO:01001616]",
"env_package": "soil",
"geo_loc_name": "USA: Nowhere, Oklahoma",
Expand All @@ -128,8 +128,8 @@
"collection_date": "2022-01-15",
"depth": "-10.4 - 45.9999",
"elev": "123.0",
"env_broad_scale": "____________urban biome [ENVO:01000249]",
"env_local_scale": "___________________tunnel [ENVO:00000068]",
"env_broad_scale": "______urban biome [ENVO:01000249]",
"env_local_scale": "________tunnel [ENVO:00000068]",
"env_medium": "bare soil [ENVO:01001616]",
"env_package": "soil",
"geo_loc_name": "USA: Nowhere, Oklahoma",
Expand All @@ -148,8 +148,8 @@
"collection_date": "2022-01-15",
"depth": "-5--6",
"elev": "123.0",
"env_broad_scale": "____________urban biome [ENVO:01000249]",
"env_local_scale": "___________________tunnel [ENVO:00000068]",
"env_broad_scale": "______urban biome [ENVO:01000249]",
"env_local_scale": "________tunnel [ENVO:00000068]",
"env_medium": "bare soil [ENVO:01001616]",
"env_package": "soil",
"geo_loc_name": "USA: Nowhere, Oklahoma",
Expand Down
32 changes: 16 additions & 16 deletions examples/output/SampleData-soil-data-depth-formats.yaml
Original file line number Diff line number Diff line change
Expand Up @@ -5,8 +5,8 @@ soil_data:
collection_date: '2022-01-15'
depth: '0'
elev: '123.0'
env_broad_scale: ____________urban biome [ENVO:01000249]
env_local_scale: ___________________tunnel [ENVO:00000068]
env_broad_scale: ______urban biome [ENVO:01000249]
env_local_scale: ________tunnel [ENVO:00000068]
env_medium: bare soil [ENVO:01001616]
env_package: soil
geo_loc_name: 'USA: Nowhere, Oklahoma'
Expand All @@ -22,8 +22,8 @@ soil_data:
collection_date: '2022-01-15'
depth: '10'
elev: '123.0'
env_broad_scale: ____________urban biome [ENVO:01000249]
env_local_scale: ___________________tunnel [ENVO:00000068]
env_broad_scale: ______urban biome [ENVO:01000249]
env_local_scale: ________tunnel [ENVO:00000068]
env_medium: bare soil [ENVO:01001616]
env_package: soil
geo_loc_name: 'USA: Nowhere, Oklahoma'
Expand All @@ -39,8 +39,8 @@ soil_data:
collection_date: '2022-01-15'
depth: '10.5'
elev: '123.0'
env_broad_scale: ____________urban biome [ENVO:01000249]
env_local_scale: ___________________tunnel [ENVO:00000068]
env_broad_scale: ______urban biome [ENVO:01000249]
env_local_scale: ________tunnel [ENVO:00000068]
env_medium: bare soil [ENVO:01001616]
env_package: soil
geo_loc_name: 'USA: Nowhere, Oklahoma'
Expand All @@ -56,8 +56,8 @@ soil_data:
collection_date: '2022-01-15'
depth: '-30.5'
elev: '123.0'
env_broad_scale: ____________urban biome [ENVO:01000249]
env_local_scale: ___________________tunnel [ENVO:00000068]
env_broad_scale: ______urban biome [ENVO:01000249]
env_local_scale: ________tunnel [ENVO:00000068]
env_medium: bare soil [ENVO:01001616]
env_package: soil
geo_loc_name: 'USA: Nowhere, Oklahoma'
Expand All @@ -73,8 +73,8 @@ soil_data:
collection_date: '2022-01-15'
depth: 10.4-45.9999
elev: '123.0'
env_broad_scale: ____________urban biome [ENVO:01000249]
env_local_scale: ___________________tunnel [ENVO:00000068]
env_broad_scale: ______urban biome [ENVO:01000249]
env_local_scale: ________tunnel [ENVO:00000068]
env_medium: bare soil [ENVO:01001616]
env_package: soil
geo_loc_name: 'USA: Nowhere, Oklahoma'
Expand All @@ -90,8 +90,8 @@ soil_data:
collection_date: '2022-01-15'
depth: 10.4 - 45.9999
elev: '123.0'
env_broad_scale: ____________urban biome [ENVO:01000249]
env_local_scale: ___________________tunnel [ENVO:00000068]
env_broad_scale: ______urban biome [ENVO:01000249]
env_local_scale: ________tunnel [ENVO:00000068]
env_medium: bare soil [ENVO:01001616]
env_package: soil
geo_loc_name: 'USA: Nowhere, Oklahoma'
Expand All @@ -107,8 +107,8 @@ soil_data:
collection_date: '2022-01-15'
depth: -10.4 - 45.9999
elev: '123.0'
env_broad_scale: ____________urban biome [ENVO:01000249]
env_local_scale: ___________________tunnel [ENVO:00000068]
env_broad_scale: ______urban biome [ENVO:01000249]
env_local_scale: ________tunnel [ENVO:00000068]
env_medium: bare soil [ENVO:01001616]
env_package: soil
geo_loc_name: 'USA: Nowhere, Oklahoma'
Expand All @@ -124,8 +124,8 @@ soil_data:
collection_date: '2022-01-15'
depth: -5--6
elev: '123.0'
env_broad_scale: ____________urban biome [ENVO:01000249]
env_local_scale: ___________________tunnel [ENVO:00000068]
env_broad_scale: ______urban biome [ENVO:01000249]
env_local_scale: ________tunnel [ENVO:00000068]
env_medium: bare soil [ENVO:01001616]
env_package: soil
geo_loc_name: 'USA: Nowhere, Oklahoma'
Expand Down
8 changes: 4 additions & 4 deletions examples/output/SampleData-soil-data-exhaustive.json
Original file line number Diff line number Diff line change
Expand Up @@ -30,8 +30,8 @@
"ecosystem_subtype": "Unclassified",
"ecosystem_type": "Soil",
"elev": "123.0",
"env_broad_scale": "____________urban biome [ENVO:01000249]",
"env_local_scale": "___________________tunnel [ENVO:00000068]",
"env_broad_scale": "______urban biome [ENVO:01000249]",
"env_local_scale": "________tunnel [ENVO:00000068]",
"env_medium": "bare soil [ENVO:01001616]",
"env_package": "soil",
"experimental_factor": "xxx [ENVO:00000000]",
Expand Down Expand Up @@ -127,8 +127,8 @@
"ecosystem_subtype": "Unclassified",
"ecosystem_type": "Soil",
"elev": "123.0",
"env_broad_scale": "____________urban biome [ENVO:01000249]",
"env_local_scale": "___________________tunnel [ENVO:00000068]",
"env_broad_scale": "______urban biome [ENVO:01000249]",
"env_local_scale": "________tunnel [ENVO:00000068]",
"env_medium": "bare soil [ENVO:01001616]",
"env_package": "soil",
"geo_loc_name": "USA: Maryland, Bethesda",
Expand Down
8 changes: 4 additions & 4 deletions examples/output/SampleData-soil-data-exhaustive.yaml
Original file line number Diff line number Diff line change
Expand Up @@ -27,8 +27,8 @@ soil_data:
ecosystem_subtype: Unclassified
ecosystem_type: Soil
elev: '123.0'
env_broad_scale: ____________urban biome [ENVO:01000249]
env_local_scale: ___________________tunnel [ENVO:00000068]
env_broad_scale: ______urban biome [ENVO:01000249]
env_local_scale: ________tunnel [ENVO:00000068]
env_medium: bare soil [ENVO:01001616]
env_package: soil
experimental_factor: xxx [ENVO:00000000]
Expand Down Expand Up @@ -120,8 +120,8 @@ soil_data:
ecosystem_subtype: Unclassified
ecosystem_type: Soil
elev: '123.0'
env_broad_scale: ____________urban biome [ENVO:01000249]
env_local_scale: ___________________tunnel [ENVO:00000068]
env_broad_scale: ______urban biome [ENVO:01000249]
env_local_scale: ________tunnel [ENVO:00000068]
env_medium: bare soil [ENVO:01001616]
env_package: soil
geo_loc_name: 'USA: Maryland, Bethesda'
Expand Down
4 changes: 2 additions & 2 deletions examples/output/SampleData-soil-data-minimal.json
Original file line number Diff line number Diff line change
Expand Up @@ -8,8 +8,8 @@
"collection_date": "2022-01-15",
"depth": "0 - 1",
"elev": "123.0",
"env_broad_scale": "____________urban biome [ENVO:01000249]",
"env_local_scale": "___________________tunnel [ENVO:00000068]",
"env_broad_scale": "______urban biome [ENVO:01000249]",
"env_local_scale": "________tunnel [ENVO:00000068]",
"env_medium": "bare soil [ENVO:01001616]",
"env_package": "soil",
"geo_loc_name": "USA: Nowhere, Oklahoma",
Expand Down
4 changes: 2 additions & 2 deletions examples/output/SampleData-soil-data-minimal.yaml
Original file line number Diff line number Diff line change
Expand Up @@ -5,8 +5,8 @@ soil_data:
collection_date: '2022-01-15'
depth: 0 - 1
elev: '123.0'
env_broad_scale: ____________urban biome [ENVO:01000249]
env_local_scale: ___________________tunnel [ENVO:00000068]
env_broad_scale: ______urban biome [ENVO:01000249]
env_local_scale: ________tunnel [ENVO:00000068]
env_medium: bare soil [ENVO:01001616]
env_package: soil
geo_loc_name: 'USA: Nowhere, Oklahoma'
Expand Down
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