Merge pull request #94 from microbiomedata/shorten_pv_underscores

Shorten underscores in envo enum PVs
microbiomedata · Apr 7, 2023 · 7ddb63b · 7ddb63b
2 parents d8eb0c4 + 91ff544
commit 7ddb63b
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diff --git a/examples/output/README.md b/examples/output/README.md
@@ -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'
@@ -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]
@@ -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'
@@ -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'
@@ -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'
@@ -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'
@@ -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'
@@ -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'
@@ -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'
@@ -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'
@@ -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'
@@ -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'
@@ -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'

diff --git a/examples/output/SampleData-soil-data-depth-formats.json b/examples/output/SampleData-soil-data-depth-formats.json
@@ -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",
@@ -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",
@@ -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",
@@ -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",
@@ -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",
@@ -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",
@@ -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",
@@ -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",

diff --git a/examples/output/SampleData-soil-data-depth-formats.yaml b/examples/output/SampleData-soil-data-depth-formats.yaml
@@ -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'
@@ -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'
@@ -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'
@@ -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'
@@ -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'
@@ -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'
@@ -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'
@@ -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'

diff --git a/examples/output/SampleData-soil-data-exhaustive.json b/examples/output/SampleData-soil-data-exhaustive.json
@@ -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]",
@@ -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",

diff --git a/examples/output/SampleData-soil-data-exhaustive.yaml b/examples/output/SampleData-soil-data-exhaustive.yaml
@@ -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]
@@ -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'

diff --git a/examples/output/SampleData-soil-data-minimal.json b/examples/output/SampleData-soil-data-minimal.json
@@ -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",

diff --git a/examples/output/SampleData-soil-data-minimal.yaml b/examples/output/SampleData-soil-data-minimal.yaml
@@ -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'